Logfile for bbregister Thu Aug 8 23:21:02 CEST 2013 setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/scripts /opt/freesurfer/5.3.0/bin/bbregister --s sub002 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/orig/T2raw.mgz --lta /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.lta --init-fsl --T2 $Id: bbregister,v 1.49.2.3 2013/03/25 18:04:53 greve Exp $ Linux snake5 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/sub002/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/mri/orig/T2raw.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.999032, 0.0218052, 0.0381938) j_ras = (0.0265301, 0.991428, 0.127932) k_ras = (0.0350768, -0.128822, 0.991047) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii... fslregister --s sub002 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister --dof 6 --fsvol brainmask.mgz Log file is /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat.fslregister.log Thu Aug 8 23:21:08 CEST 2013 --s sub002 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister --dof 6 --fsvol brainmask.mgz $Id: fslregister,v 1.34.2.2 2012/11/08 16:18:56 greve Exp $ snake5 Linux snake5 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/sub002/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/refvol.fslregister.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/mri/brainmask.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 4.19095e-09, 0) j_ras = (0, 1.49012e-08, -1) k_ras = (0, 1, 0) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/refvol.fslregister.nii... -------------------------------------- /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/movvol.fslregister.nii --frame 0 mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/mri/transforms/tmp.bbregister.19392/template.nii... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.999032, 0.0218052, 0.0381938) j_ras = (0.0265301, 0.991428, 0.127932) k_ras = (0.0350768, -0.128822, 0.991047) keeping frame 0 writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/movvol.fslregister.nii... Mov determinant is -0.311049 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/scripts tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/movvol.fslregister.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/reg0.19435.dat --regheader --fslregout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat.fsl.mat0 --s sub002 --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/sub002/mri/transforms/tmp.bbregister.19392/fslregister/movvol.fslregister.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/reg0.19435.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/sub002/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/sub002/mri/transforms/tmp.bbregister.19392/fslregister/movvol.fslregister.nii Tmov: -------------------- -0.700 0.000 0.000 95.881; 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 -0.022 -0.038 0.000; 0.035 -0.129 0.991 -0.000; -0.027 -0.991 -0.128 0.000; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.999 -0.022 -0.038 0.000; 0.035 -0.129 0.991 -0.000; -0.027 -0.991 -0.128 0.000; 0.000 0.000 0.000 1.000; Determinant 0.999999 subject = sub002 RegMat --------------------------- 0.999 -0.022 -0.038 0.000; 0.035 -0.129 0.991 -0.000; -0.027 -0.991 -0.128 0.000; 0.000 0.000 0.000 1.000; FSLOUTPUTTYPE NIFTI tkreg2FSL: mov det = -0.311049, ref det = -1 Thu Aug 8 23:21:18 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/mri/transforms/tmp.bbregister.19392/fslregister/fslmat0.trans.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/xyztrans.sch -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat.fsl.mat0 Thu Aug 8 23:25:42 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat.fsl.mat -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/fslregister/fslmat0.trans.mat -schedule /opt/freesurfer/5.3.0/bin/flirt.newdefault.20080811.sch tkregister2_cmdl --s sub002 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --fslreg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat.fsl.mat --noedit tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl ---- FSL registration matrix -------- 0.999 -0.028 -0.022 38.022; -0.025 -0.094 -0.995 271.186; 0.025 0.995 -0.095 8.808; 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/sub002/mri/transforms/tmp.bbregister.19392/template.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/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/sub002/mri/transforms/tmp.bbregister.19392/template.nii Tmov: -------------------- -0.700 0.000 0.000 95.881; 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 = -0.311049, ref det = -1 ---- Input registration matrix (computed) -------- 0.999 -0.025 -0.025 -0.620; 0.022 -0.095 0.995 1.194; -0.028 -0.995 -0.094 -1.620; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.999 -0.025 -0.025 -0.620; 0.022 -0.095 0.995 1.194; -0.028 -0.995 -0.094 -1.620; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub002 RegMat --------------------------- 0.999 -0.025 -0.025 -0.620; 0.022 -0.095 0.995 1.194; -0.028 -0.995 -0.094 -1.620; 0.000 0.000 0.000 1.000; Started at Thu Aug 8 23:21:08 CEST 2013 Ended at Thu Aug 8 23:31:41 CEST 2013 fslregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --surf orig mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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 snake5 machine x86_64 user fkaule movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.init.dat subject sub002 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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 1376450912 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.999 -0.025 -0.025 -0.620; 0.022 -0.095 0.995 1.194; -0.028 -0.995 -0.094 -1.620; 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 1.045212 1 -25.0 -25.0 25.0 1.003322 2 -25.0 25.0 -25.0 1.007902 3 -25.0 25.0 25.0 1.026935 4 25.0 -25.0 -25.0 1.013771 5 25.0 -25.0 25.0 1.061154 6 25.0 25.0 -25.0 1.023364 7 25.0 25.0 25.0 1.010720 REL: 8 0.315800 8.192379 1.024047 rel = 0.308384 Initial costs ---------------- Number of surface hits 3047 WM Intensity 57.8110 +/- 8.6409 Ctx Intensity 70.0825 +/- 11.1034 Pct Contrast 18.8163 +/- 18.7598 Cost 0.3158 RelCost 0.3084 ------------------------------------ Brute force preopt -4 4 4, n = 729 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.9581 0.9581 0.0 15 -4.0000 -4.0000 -4.0000 0.0000 4.0000 -4.0000 0.8927 0.8927 0.0 21 -4.0000 -4.0000 -4.0000 4.0000 0.0000 -4.0000 0.8505 0.8505 0.0 39 -4.0000 -4.0000 0.0000 0.0000 0.0000 -4.0000 0.8266 0.8266 0.0 120 -4.0000 0.0000 0.0000 0.0000 0.0000 -4.0000 0.7720 0.7720 0.0 301 0.0000 -4.0000 4.0000 -4.0000 0.0000 0.0000 0.7307 0.7307 0.0 346 0.0000 0.0000 -4.0000 4.0000 0.0000 0.0000 0.7154 0.7154 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.3158 0.3158 0.0 Brute Force -------------------------- Min cost was 0.315800 Number of iterations 729 Search time 2.638000 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 -0.038 0.000 0.000 0.000 0.000 0.000 0.3141953586 9 -0.089 0.000 0.000 0.000 0.000 0.000 0.3140502370 10 -0.067 0.000 0.000 0.000 0.000 0.000 0.3137921398 11 -0.066 0.000 0.000 0.000 0.000 0.000 0.3137911513 17 -0.066 -0.618 0.000 0.000 0.000 0.000 0.2756750169 19 -0.066 -0.587 0.000 0.000 0.000 0.000 0.2751719787 22 -0.066 -0.583 0.000 0.000 0.000 0.000 0.2751619203 26 -0.066 -0.583 1.000 0.000 0.000 0.000 0.1754425269 31 -0.066 -0.583 1.102 0.000 0.000 0.000 0.1711928032 33 -0.066 -0.583 1.196 0.000 0.000 0.000 0.1698448987 34 -0.066 -0.583 1.197 0.000 0.000 0.000 0.1698422257 35 -0.066 -0.583 1.207 0.000 0.000 0.000 0.1698337980 37 -0.066 -0.583 1.204 0.000 0.000 0.000 0.1698317278 38 -0.066 -0.583 1.203 0.000 0.000 0.000 0.1698315153 39 -0.066 -0.583 1.202 0.000 0.000 0.000 0.1698312767 41 -0.066 -0.583 1.201 0.000 0.000 0.000 0.1698309996 48 -0.066 -0.583 1.201 -0.143 0.000 0.000 0.1646940319 50 -0.066 -0.583 1.201 -0.125 0.000 0.000 0.1644750936 53 -0.066 -0.583 1.201 -0.112 0.000 0.000 0.1644734824 54 -0.066 -0.583 1.201 -0.118 0.000 0.000 0.1644524372 55 -0.066 -0.583 1.201 -0.119 0.000 0.000 0.1644516281 63 -0.066 -0.583 1.201 -0.119 -0.087 0.000 0.1642141626 67 -0.066 -0.583 1.201 -0.119 -0.116 0.000 0.1640114329 69 -0.066 -0.583 1.201 -0.119 -0.111 0.000 0.1639960182 77 -0.066 -0.583 1.201 -0.119 -0.111 0.382 0.1597704919 82 -0.066 -0.583 1.201 -0.119 -0.111 0.387 0.1597694456 83 -0.066 -0.583 1.201 -0.119 -0.111 0.385 0.1597666659 92 0.316 -0.583 1.201 -0.119 -0.111 0.385 0.1479585072 93 0.282 -0.583 1.201 -0.119 -0.111 0.385 0.1479536807 97 0.263 -0.583 1.201 -0.119 -0.111 0.385 0.1479532345 98 0.268 -0.583 1.201 -0.119 -0.111 0.385 0.1479499926 99 0.273 -0.583 1.201 -0.119 -0.111 0.385 0.1479497019 100 0.271 -0.583 1.201 -0.119 -0.111 0.385 0.1479482908 108 0.271 -0.651 1.201 -0.119 -0.111 0.385 0.1472668685 109 0.271 -0.655 1.201 -0.119 -0.111 0.385 0.1472428043 111 0.271 -0.692 1.201 -0.119 -0.111 0.385 0.1470721936 114 0.271 -0.690 1.201 -0.119 -0.111 0.385 0.1470695059 116 0.271 -0.689 1.201 -0.119 -0.111 0.385 0.1470688066 124 0.271 -0.689 1.205 -0.119 -0.111 0.385 0.1470313978 125 0.271 -0.689 1.242 -0.119 -0.111 0.385 0.1467459901 128 0.271 -0.689 1.236 -0.119 -0.111 0.385 0.1467363085 137 0.271 -0.689 1.236 -0.135 -0.111 0.385 0.1464510371 138 0.271 -0.689 1.236 -0.181 -0.111 0.385 0.1462013748 140 0.271 -0.689 1.236 -0.171 -0.111 0.385 0.1461816849 141 0.271 -0.689 1.236 -0.172 -0.111 0.385 0.1461805886 153 0.271 -0.689 1.236 -0.172 -0.115 0.385 0.1461751148 154 0.271 -0.689 1.236 -0.172 -0.116 0.385 0.1461750893 162 0.271 -0.689 1.236 -0.172 -0.116 0.481 0.1452244900 163 0.271 -0.689 1.236 -0.172 -0.116 0.475 0.1452053737 165 0.271 -0.689 1.236 -0.172 -0.116 0.474 0.1452050146 174 0.321 -0.689 1.236 -0.172 -0.116 0.474 0.1443831908 175 0.350 -0.689 1.236 -0.172 -0.116 0.474 0.1440496667 179 0.356 -0.689 1.236 -0.172 -0.116 0.474 0.1440469570 180 0.354 -0.689 1.236 -0.172 -0.116 0.474 0.1440446627 181 0.353 -0.689 1.236 -0.172 -0.116 0.474 0.1440445955 189 0.353 -0.657 1.236 -0.172 -0.116 0.474 0.1431075845 191 0.353 -0.637 1.236 -0.172 -0.116 0.474 0.1426990985 193 0.353 -0.635 1.236 -0.172 -0.116 0.474 0.1426940237 203 0.353 -0.635 1.294 -0.172 -0.116 0.474 0.1426287709 205 0.353 -0.635 1.267 -0.172 -0.116 0.474 0.1423279907 207 0.353 -0.635 1.270 -0.172 -0.116 0.474 0.1423240408 209 0.353 -0.635 1.269 -0.172 -0.116 0.474 0.1423230640 219 0.353 -0.635 1.269 -0.184 -0.116 0.474 0.1421965462 220 0.353 -0.635 1.269 -0.195 -0.116 0.474 0.1421919782 221 0.353 -0.635 1.269 -0.190 -0.116 0.474 0.1421769936 223 0.353 -0.635 1.269 -0.191 -0.116 0.474 0.1421761423 235 0.353 -0.635 1.269 -0.191 -0.120 0.474 0.1421721305 236 0.353 -0.635 1.269 -0.191 -0.118 0.474 0.1421696081 244 0.353 -0.635 1.269 -0.191 -0.118 0.532 0.1415484783 245 0.353 -0.635 1.269 -0.191 -0.118 0.542 0.1414569684 249 0.353 -0.635 1.269 -0.191 -0.118 0.548 0.1414469491 251 0.353 -0.635 1.269 -0.191 -0.118 0.550 0.1414460173 253 0.353 -0.635 1.269 -0.191 -0.118 0.549 0.1414459261 263 0.375 -0.635 1.269 -0.191 -0.118 0.549 0.1412665385 264 0.372 -0.635 1.269 -0.191 -0.118 0.549 0.1412527009 265 0.370 -0.635 1.269 -0.191 -0.118 0.549 0.1412521634 275 0.370 -0.646 1.269 -0.191 -0.118 0.549 0.1411436862 276 0.370 -0.648 1.269 -0.191 -0.118 0.549 0.1411432667 296 0.370 -0.648 1.269 -0.185 -0.118 0.549 0.1411159889 297 0.370 -0.648 1.269 -0.184 -0.118 0.549 0.1411140306 298 0.370 -0.648 1.269 -0.181 -0.118 0.549 0.1411132437 301 0.370 -0.648 1.269 -0.182 -0.118 0.549 0.1411126876 310 0.370 -0.648 1.269 -0.182 -0.122 0.549 0.1410933128 312 0.370 -0.648 1.269 -0.182 -0.124 0.549 0.1410913296 322 0.370 -0.648 1.269 -0.182 -0.124 0.566 0.1410126710 323 0.370 -0.648 1.269 -0.182 -0.124 0.564 0.1410103861 334 0.378 -0.648 1.269 -0.182 -0.124 0.564 0.1409838751 336 0.380 -0.648 1.269 -0.182 -0.124 0.564 0.1409838716 339 0.379 -0.648 1.269 -0.182 -0.124 0.564 0.1409830254 349 0.379 -0.646 1.269 -0.182 -0.124 0.564 0.1409792329 359 0.379 -0.646 1.266 -0.182 -0.124 0.564 0.1409789909 361 0.379 -0.646 1.267 -0.182 -0.124 0.564 0.1409778129 373 0.379 -0.646 1.267 -0.185 -0.124 0.564 0.1409715915 387 0.379 -0.646 1.267 -0.185 -0.125 0.564 0.1409707488 398 0.379 -0.646 1.267 -0.185 -0.125 0.570 0.1409646826 410 0.380 -0.646 1.267 -0.185 -0.125 0.570 0.1409638042 421 0.380 -0.645 1.267 -0.185 -0.125 0.570 0.1409606695 443 0.380 -0.645 1.267 -0.186 -0.125 0.570 0.1409603982 453 0.380 -0.645 1.267 -0.186 -0.124 0.570 0.1409583581 454 0.380 -0.645 1.267 -0.186 -0.123 0.570 0.1409575415 465 0.380 -0.645 1.267 -0.186 -0.123 0.571 0.1409573469 Powell done niters = 5 Computing relative cost 0 -25.0 -25.0 -25.0 0.995672 1 -25.0 -25.0 25.0 1.042601 2 -25.0 25.0 -25.0 1.011952 3 -25.0 25.0 25.0 1.001417 4 25.0 -25.0 -25.0 1.005375 5 25.0 -25.0 25.0 1.030164 6 25.0 25.0 -25.0 1.026341 7 25.0 25.0 25.0 1.008419 REL: 8 0.140957 8.121942 1.015243 rel = 0.138841 Number of iterations 5 Min cost was 0.140957 Number of FunctionCalls 467 TolPowell 0.000100 nMaxItersPowell 36 OptimizationTime 1.789000 sec Parameters at optimum (transmm) 0.38005 -0.64469 1.26704 Parameters at optimum (rotdeg) -0.18598 -0.12277 0.57063 Final costs ---------------- Number of surface hits 3047 WM Intensity 56.9871 +/- 7.9749 Ctx Intensity 69.4327 +/- 8.6816 Pct Contrast 19.7210 +/- 13.7119 Cost 0.1410 RelCost 0.3084 Reg at min cost was 0.999 -0.022 -0.034 -0.249; 0.032 -0.098 0.995 0.538; -0.026 -0.995 -0.098 -0.358; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/bbr.pass1.dat, type = 14 Original Reg 0.999 -0.025 -0.025 -0.620; 0.022 -0.095 0.995 1.194; -0.028 -0.995 -0.094 -1.620; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg 0.000 -0.003 0.010 -0.372; -0.010 0.003 0.001 0.656; -0.002 -0.000 0.003 -1.262; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 1.418080 Computing change in rh position Surface RMS Diff (mm) 1.349605 1.734044 mri_segreg done mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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/sub002/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/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/sub002/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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/sub002/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5 sysname Linux hostname snake5 machine x86_64 user fkaule movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/tmp.bbregister.19392/bbr.pass1.dat subject sub002 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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 1376706176 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.999 -0.022 -0.034 -0.249; 0.032 -0.098 0.995 0.538; -0.026 -0.995 -0.098 -0.358; 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 1.005681 1 -25.0 -25.0 25.0 1.001206 2 -25.0 25.0 -25.0 1.012760 3 -25.0 25.0 25.0 1.019027 4 25.0 -25.0 -25.0 1.023239 5 25.0 -25.0 25.0 1.021860 6 25.0 25.0 -25.0 1.018151 7 25.0 25.0 25.0 1.018750 REL: 8 0.160538 8.120674 1.015084 rel = 0.158153 Initial costs ---------------- Number of surface hits 306067 WM Intensity 57.2975 +/- 8.3244 Ctx Intensity 69.4291 +/- 8.7579 Pct Contrast 19.2108 +/- 14.0392 Cost 0.1605 RelCost 0.1582 ------------------------------------ Brute force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.1584 0.1584 0.0 1 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.1579 0.1579 0.0 3 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 0.1559 0.1559 0.0 6 -0.1000 -0.1000 -0.1000 -0.1000 0.1000 -0.1000 0.1548 0.1548 0.0 9 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 -0.1000 0.1511 0.1511 0.0 12 -0.1000 -0.1000 -0.1000 0.0000 0.0000 -0.1000 0.1491 0.1491 0.0 19 -0.1000 -0.1000 -0.1000 0.1000 -0.1000 0.0000 0.1464 0.1464 0.0 22 -0.1000 -0.1000 -0.1000 0.1000 0.0000 0.0000 0.1457 0.1457 0.0 46 -0.1000 -0.1000 0.0000 0.1000 -0.1000 0.0000 0.1446 0.1446 0.0 49 -0.1000 -0.1000 0.0000 0.1000 0.0000 0.0000 0.1423 0.1423 0.0 293 0.0000 -0.1000 0.0000 0.1000 0.0000 0.1000 0.1422 0.1422 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.1410 0.1410 0.0 Brute Force -------------------------- Min cost was 0.140957 Number of iterations 729 Search time 2.641000 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 8 -0.025 0.000 0.000 0.000 0.000 0.000 0.1604698779 11 -0.026 0.000 0.000 0.000 0.000 0.000 0.1604692307 12 -0.027 0.000 0.000 0.000 0.000 0.000 0.1604690775 20 -0.027 -0.085 0.000 0.000 0.000 0.000 0.1599344056 21 -0.027 -0.069 0.000 0.000 0.000 0.000 0.1598841461 22 -0.027 -0.066 0.000 0.000 0.000 0.000 0.1598820851 23 -0.027 -0.065 0.000 0.000 0.000 0.000 0.1598819801 31 -0.027 -0.065 -0.050 0.000 0.000 0.000 0.1594113639 32 -0.027 -0.065 -0.083 0.000 0.000 0.000 0.1593761960 33 -0.027 -0.065 -0.072 0.000 0.000 0.000 0.1593607907 34 -0.027 -0.065 -0.071 0.000 0.000 0.000 0.1593605731 35 -0.027 -0.065 -0.070 0.000 0.000 0.000 0.1593605096 44 -0.027 -0.065 -0.070 0.096 0.000 0.000 0.1582018373 45 -0.027 -0.065 -0.070 0.083 0.000 0.000 0.1581597755 46 -0.027 -0.065 -0.070 0.081 0.000 0.000 0.1581593829 48 -0.027 -0.065 -0.070 0.082 0.000 0.000 0.1581592468 56 -0.027 -0.065 -0.070 0.082 0.009 0.000 0.1581555923 57 -0.027 -0.065 -0.070 0.082 0.007 0.000 0.1581551333 68 -0.027 -0.065 -0.070 0.082 0.007 0.031 0.1580046776 70 -0.027 -0.065 -0.070 0.082 0.007 0.039 0.1580007565 71 -0.027 -0.065 -0.070 0.082 0.007 0.037 0.1579999205 72 -0.027 -0.065 -0.070 0.082 0.007 0.036 0.1579999029 82 -0.016 -0.065 -0.070 0.082 0.007 0.036 0.1579976067 83 -0.020 -0.065 -0.070 0.082 0.007 0.036 0.1579957129 84 -0.021 -0.065 -0.070 0.082 0.007 0.036 0.1579953629 86 -0.022 -0.065 -0.070 0.082 0.007 0.036 0.1579952922 93 -0.022 -0.051 -0.070 0.082 0.007 0.036 0.1579751893 94 -0.022 -0.050 -0.070 0.082 0.007 0.036 0.1579748305 95 -0.022 -0.049 -0.070 0.082 0.007 0.036 0.1579745553 104 -0.022 -0.049 -0.112 0.082 0.007 0.036 0.1576380933 105 -0.022 -0.049 -0.139 0.082 0.007 0.036 0.1576224577 106 -0.022 -0.049 -0.129 0.082 0.007 0.036 0.1576082843 115 -0.022 -0.049 -0.129 0.127 0.007 0.036 0.1575930703 116 -0.022 -0.049 -0.129 0.105 0.007 0.036 0.1574967914 117 -0.022 -0.049 -0.129 0.104 0.007 0.036 0.1574965506 127 -0.022 -0.049 -0.129 0.104 0.008 0.036 0.1574965050 138 -0.022 -0.049 -0.129 0.104 0.008 0.038 0.1574956748 147 -0.020 -0.042 -0.151 0.113 0.008 0.039 0.1574506786 148 -0.020 -0.042 -0.152 0.113 0.008 0.039 0.1574505847 150 -0.020 -0.042 -0.152 0.113 0.008 0.039 0.1574505287 161 -0.011 -0.042 -0.152 0.113 0.008 0.039 0.1574457183 162 -0.012 -0.042 -0.152 0.113 0.008 0.039 0.1574455433 163 -0.013 -0.042 -0.152 0.113 0.008 0.039 0.1574454586 173 -0.013 -0.040 -0.152 0.113 0.008 0.039 0.1574453159 174 -0.013 -0.039 -0.152 0.113 0.008 0.039 0.1574453127 184 -0.013 -0.039 -0.152 0.113 0.008 0.047 0.1574429504 185 -0.013 -0.039 -0.152 0.113 0.008 0.045 0.1574422983 203 -0.013 -0.039 -0.152 0.113 0.009 0.045 0.1574421157 215 -0.013 -0.039 -0.152 0.113 0.010 0.045 0.1574420488 226 -0.008 -0.039 -0.152 0.113 0.010 0.045 0.1574415627 227 -0.010 -0.039 -0.152 0.113 0.010 0.045 0.1574413323 236 -0.011 -0.040 -0.152 0.113 0.010 0.045 0.1574411857 237 -0.011 -0.041 -0.152 0.113 0.010 0.045 0.1574410506 251 -0.011 -0.041 -0.152 0.113 0.010 0.046 0.1574410163 268 -0.011 -0.041 -0.152 0.113 0.009 0.046 0.1574409780 282 -0.009 -0.043 -0.152 0.113 0.007 0.047 0.1574406570 288 -0.010 -0.042 -0.152 0.113 0.008 0.047 0.1574406306 294 -0.010 -0.042 -0.152 0.113 0.008 0.047 0.1574406169 312 -0.009 -0.042 -0.152 0.113 0.008 0.047 0.1574406043 341 -0.009 -0.042 -0.152 0.114 0.008 0.047 0.1574405976 351 -0.009 -0.042 -0.152 0.114 0.009 0.047 0.1574404797 352 -0.009 -0.042 -0.152 0.114 0.010 0.047 0.1574404247 356 -0.008 -0.044 -0.152 0.114 0.009 0.048 0.1574402747 360 -0.008 -0.043 -0.152 0.114 0.009 0.047 0.1574401378 361 -0.008 -0.043 -0.152 0.114 0.009 0.047 0.1574401359 367 -0.008 -0.043 -0.152 0.114 0.009 0.047 0.1574401258 394 -0.008 -0.042 -0.152 0.114 0.009 0.047 0.1574399686 415 -0.008 -0.042 -0.152 0.113 0.009 0.047 0.1574399435 430 -0.007 -0.043 -0.152 0.113 0.008 0.048 0.1574399122 435 -0.007 -0.043 -0.152 0.113 0.008 0.048 0.1574398981 437 -0.007 -0.043 -0.152 0.113 0.008 0.048 0.1574398809 475 -0.007 -0.043 -0.152 0.113 0.008 0.049 0.1574398589 492 -0.007 -0.043 -0.152 0.113 0.009 0.049 0.1574398442 513 -0.007 -0.043 -0.152 0.113 0.009 0.049 0.1574398301 514 -0.007 -0.043 -0.153 0.113 0.009 0.049 0.1574397932 569 -0.007 -0.043 -0.153 0.113 0.009 0.049 0.1574397637 635 -0.007 -0.043 -0.153 0.113 0.009 0.049 0.1574397566 Powell done niters = 9 Computing relative cost 0 -25.0 -25.0 -25.0 1.007105 1 -25.0 -25.0 25.0 1.000977 2 -25.0 25.0 -25.0 1.012423 3 -25.0 25.0 25.0 1.019748 4 25.0 -25.0 -25.0 1.024266 5 25.0 -25.0 25.0 1.022357 6 25.0 25.0 -25.0 1.018454 7 25.0 25.0 25.0 1.018845 REL: 8 0.157440 8.124174 1.015522 rel = 0.155033 Number of iterations 9 Min cost was 0.157440 Number of FunctionCalls 706 TolPowell 0.000000 nMaxItersPowell 36 OptimizationTime 96.378000 sec Parameters at optimum (transmm) -0.00715 -0.04306 -0.15259 Parameters at optimum (rotdeg) 0.11330 0.00929 0.04876 Final costs ---------------- Number of surface hits 306067 WM Intensity 57.2881 +/- 8.2908 Ctx Intensity 69.4207 +/- 8.7837 Pct Contrast 19.2072 +/- 13.9822 Cost 0.1574 RelCost 0.1582 Reg at min cost was 0.999 -0.022 -0.035 -0.256; 0.033 -0.096 0.995 0.495; -0.026 -0.995 -0.096 -0.509; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.dat, type = 14 Original Reg 0.999 -0.022 -0.034 -0.249; 0.032 -0.098 0.995 0.538; -0.026 -0.995 -0.098 -0.358; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg 0.000 0.000 0.001 0.008; -0.001 -0.002 -0.000 0.043; 0.000 0.000 -0.002 0.151; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 0.158104 Computing change in rh position Surface RMS Diff (mm) 0.145179 0.292914 mri_segreg done tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.dat --noedit --ltaout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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/sub002/mri/orig/T2raw.mgz reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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 -------- 0.999 -0.022 -0.035 -0.256; 0.033 -0.096 0.995 0.495; -0.026 -0.995 -0.096 -0.509; 0.000 0.000 0.000 1.000; float2int = 0 --------------------------------------- INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/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/sub002/mri/orig/T2raw.mgz Tmov: -------------------- -0.700 0.000 0.000 95.881; 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 -------- 0.999 -0.022 -0.035 -0.256; 0.033 -0.096 0.995 0.495; -0.026 -0.995 -0.096 -0.509; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub002 RegMat --------------------------- 0.999 -0.022 -0.035 -0.256; 0.033 -0.096 0.995 0.495; -0.026 -0.995 -0.096 -0.509; 0.000 0.000 0.000 1.000; transformed matrix: 1.000 -0.001 -0.002 0.174; 0.001 0.999 0.033 0.490; 0.002 -0.033 0.999 0.098; 0.000 0.000 0.000 1.000; transformed matrix: 0.699 -0.017 -0.022 39.493; -0.025 -0.064 -0.663 271.504; 0.016 0.663 -0.064 10.351; 0.000 0.000 0.000 1.000; Cleaning up Started at Thu Aug 8 23:21:02 CEST 2013 Ended at Thu Aug 8 23:34:14 CEST 2013 BBR-Run-Time-Sec 792 bbregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub002/mri/transforms/T2raw.dat --surf