Logfile for bbregister Thu Aug 8 23:21:40 CEST 2013 setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/scripts /opt/freesurfer/5.3.0/bin/bbregister --s sub016 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/orig/T2raw.mgz --lta /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.lta --init-fsl --T2 $Id: bbregister,v 1.49.2.3 2013/03/25 18:04:53 greve Exp $ Linux snake6 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/sub016/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/mri/orig/T2raw.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.999248, 0.0307568, 0.0236215) j_ras = (0.0317878, 0.9985, 0.0445881) k_ras = (0.0222147, -0.0453054, 0.998726) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii... fslregister --s sub016 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister --dof 6 --fsvol brainmask.mgz Log file is /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat.fslregister.log Thu Aug 8 23:21:45 CEST 2013 --s sub016 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister --dof 6 --fsvol brainmask.mgz $Id: fslregister,v 1.34.2.2 2012/11/08 16:18:56 greve Exp $ snake6 Linux snake6 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/sub016/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/refvol.fslregister.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/mri/brainmask.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 1.86265e-09, 3.72529e-09) j_ras = (1.86265e-09, 0, -1) k_ras = (-1.97906e-09, 1, -3.72529e-09) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/refvol.fslregister.nii... -------------------------------------- /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/movvol.fslregister.nii --frame 0 mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/mri/transforms/tmp.bbregister.24421/template.nii... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.999248, 0.0307568, 0.0236215) j_ras = (0.0317878, 0.9985, 0.0445881) k_ras = (0.0222147, -0.0453054, 0.998726) keeping frame 0 writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/movvol.fslregister.nii... Mov determinant is -0.311066 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/scripts tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/movvol.fslregister.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/reg0.24460.dat --regheader --fslregout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat.fsl.mat0 --s sub016 --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/sub016/mri/transforms/tmp.bbregister.24421/fslregister/movvol.fslregister.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/reg0.24460.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/sub016/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/sub016/mri/transforms/tmp.bbregister.24421/fslregister/movvol.fslregister.nii Tmov: -------------------- -0.700 0.000 0.000 95.886; 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 -0.031 -0.024 -0.000; 0.022 -0.045 0.999 -0.000; -0.032 -0.998 -0.045 -0.000; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.999 -0.031 -0.024 -0.000; 0.022 -0.045 0.999 -0.000; -0.032 -0.998 -0.045 -0.000; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub016 RegMat --------------------------- 0.999 -0.031 -0.024 -0.000; 0.022 -0.045 0.999 -0.000; -0.032 -0.998 -0.045 -0.000; 0.000 0.000 0.000 1.000; FSLOUTPUTTYPE NIFTI tkreg2FSL: mov det = -0.311066, ref det = -1 Thu Aug 8 23:21:54 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/mri/transforms/tmp.bbregister.24421/fslregister/fslmat0.trans.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/xyztrans.sch -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat.fsl.mat0 Thu Aug 8 23:26:14 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat.fsl.mat -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/fslregister/fslmat0.trans.mat -schedule /opt/freesurfer/5.3.0/bin/flirt.newdefault.20080811.sch tkregister2_cmdl --s sub016 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --fslreg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat.fsl.mat --noedit tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl ---- FSL registration matrix -------- 0.999 -0.033 -0.022 39.132; -0.023 -0.039 -0.999 265.314; 0.032 0.999 -0.040 0.697; 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/sub016/mri/transforms/tmp.bbregister.24421/template.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/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/sub016/mri/transforms/tmp.bbregister.24421/template.nii Tmov: -------------------- -0.700 0.000 0.000 95.886; 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 = -0.311066, ref det = -1 ---- Input registration matrix (computed) -------- 0.999 -0.032 -0.023 -0.073; 0.022 -0.040 0.999 2.189; -0.033 -0.999 -0.039 -1.621; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.999 -0.032 -0.023 -0.073; 0.022 -0.040 0.999 2.189; -0.033 -0.999 -0.039 -1.621; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub016 RegMat --------------------------- 0.999 -0.032 -0.023 -0.073; 0.022 -0.040 0.999 2.189; -0.033 -0.999 -0.039 -1.621; 0.000 0.000 0.000 1.000; Started at Thu Aug 8 23:21:45 CEST 2013 Ended at Thu Aug 8 23:31:55 CEST 2013 fslregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --surf orig mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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 snake6 machine x86_64 user fkaule movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.init.dat subject sub016 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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 1376727398 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.999 -0.032 -0.023 -0.073; 0.022 -0.040 0.999 2.189; -0.033 -0.999 -0.039 -1.621; 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 0.991698 1 -25.0 -25.0 25.0 1.017919 2 -25.0 25.0 -25.0 1.014961 3 -25.0 25.0 25.0 1.012154 4 25.0 -25.0 -25.0 1.053511 5 25.0 -25.0 25.0 1.038265 6 25.0 25.0 -25.0 1.025332 7 25.0 25.0 25.0 1.040335 REL: 8 0.497330 8.194174 1.024272 rel = 0.485545 Initial costs ---------------- Number of surface hits 3047 WM Intensity 58.1412 +/- 8.4125 Ctx Intensity 68.1580 +/- 13.9941 Pct Contrast 14.7458 +/- 22.3937 Cost 0.4973 RelCost 0.4855 ------------------------------------ Brute force preopt -4 4 4, n = 729 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.9706 0.9706 0.0 1 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 0.9683 0.9683 0.0 3 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 0.9651 0.9651 0.0 15 -4.0000 -4.0000 -4.0000 0.0000 4.0000 -4.0000 0.8698 0.8698 0.0 21 -4.0000 -4.0000 -4.0000 4.0000 0.0000 -4.0000 0.8503 0.8503 0.0 39 -4.0000 -4.0000 0.0000 0.0000 0.0000 -4.0000 0.8111 0.8111 0.0 120 -4.0000 0.0000 0.0000 0.0000 0.0000 -4.0000 0.7265 0.7265 0.0 346 0.0000 0.0000 -4.0000 4.0000 0.0000 0.0000 0.7237 0.7237 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.4973 0.4973 0.0 Brute Force -------------------------- Min cost was 0.497330 Number of iterations 729 Search time 2.336000 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 0.058 0.000 0.000 0.000 0.000 0.000 0.4962479741 8 0.173 0.000 0.000 0.000 0.000 0.000 0.4956493570 9 0.150 0.000 0.000 0.000 0.000 0.000 0.4954339777 11 0.148 0.000 0.000 0.000 0.000 0.000 0.4954213621 12 0.144 0.000 0.000 0.000 0.000 0.000 0.4954030878 18 0.144 -1.618 0.000 0.000 0.000 0.000 0.3123496406 23 0.144 -1.481 0.000 0.000 0.000 0.000 0.3072172974 24 0.144 -1.427 0.000 0.000 0.000 0.000 0.3064682236 26 0.144 -1.443 0.000 0.000 0.000 0.000 0.3063398337 27 0.144 -1.442 0.000 0.000 0.000 0.000 0.3063332070 28 0.144 -1.439 0.000 0.000 0.000 0.000 0.3063242057 33 0.144 -1.439 1.000 0.000 0.000 0.000 0.1447468946 38 0.144 -1.439 1.258 0.000 0.000 0.000 0.1406853989 39 0.144 -1.439 1.242 0.000 0.000 0.000 0.1403118087 40 0.144 -1.439 1.178 0.000 0.000 0.000 0.1399896185 42 0.144 -1.439 1.199 0.000 0.000 0.000 0.1397496399 44 0.144 -1.439 1.200 0.000 0.000 0.000 0.1397479461 57 0.144 -1.439 1.200 0.009 0.000 0.000 0.1395871869 58 0.144 -1.439 1.200 0.011 0.000 0.000 0.1395814210 67 0.144 -1.439 1.200 0.011 -0.164 0.000 0.1379313531 68 0.144 -1.439 1.200 0.011 -0.132 0.000 0.1376534846 69 0.144 -1.439 1.200 0.011 -0.118 0.000 0.1373763056 71 0.144 -1.439 1.200 0.011 -0.103 0.000 0.1372832564 80 0.144 -1.439 1.200 0.011 -0.103 0.119 0.1361960394 81 0.144 -1.439 1.200 0.011 -0.103 0.101 0.1360196246 82 0.144 -1.439 1.200 0.011 -0.103 0.083 0.1359179116 84 0.144 -1.439 1.200 0.011 -0.103 0.079 0.1359153918 85 0.144 -1.439 1.200 0.011 -0.103 0.080 0.1359150338 97 0.151 -1.439 1.200 0.011 -0.103 0.080 0.1359105495 98 0.149 -1.439 1.200 0.011 -0.103 0.080 0.1359064688 99 0.148 -1.439 1.200 0.011 -0.103 0.080 0.1359061504 107 0.148 -1.462 1.200 0.011 -0.103 0.080 0.1354371527 109 0.148 -1.526 1.200 0.011 -0.103 0.080 0.1348476725 110 0.148 -1.545 1.200 0.011 -0.103 0.080 0.1346955371 111 0.148 -1.577 1.200 0.011 -0.103 0.080 0.1345269131 113 0.148 -1.565 1.200 0.011 -0.103 0.080 0.1345157736 114 0.148 -1.570 1.200 0.011 -0.103 0.080 0.1345017495 115 0.148 -1.571 1.200 0.011 -0.103 0.080 0.1345011534 124 0.148 -1.571 1.153 0.011 -0.103 0.080 0.1344975072 125 0.148 -1.571 1.176 0.011 -0.103 0.080 0.1343772027 127 0.148 -1.571 1.171 0.011 -0.103 0.080 0.1343579904 129 0.148 -1.571 1.169 0.011 -0.103 0.080 0.1343552516 141 0.148 -1.571 1.169 0.010 -0.103 0.080 0.1343542902 150 0.148 -1.571 1.169 0.010 -0.131 0.080 0.1339936964 152 0.148 -1.571 1.169 0.010 -0.132 0.080 0.1339928523 162 0.148 -1.571 1.169 0.010 -0.132 0.045 0.1339816050 163 0.148 -1.571 1.169 0.010 -0.132 0.062 0.1338638798 166 0.148 -1.571 1.169 0.010 -0.132 0.064 0.1338620199 175 0.141 -1.571 1.169 0.010 -0.132 0.064 0.1337887306 179 0.138 -1.571 1.169 0.010 -0.132 0.064 0.1337767557 191 0.138 -1.582 1.169 0.010 -0.132 0.064 0.1337187231 193 0.138 -1.581 1.169 0.010 -0.132 0.064 0.1337185913 206 0.138 -1.581 1.164 0.010 -0.132 0.064 0.1336990090 208 0.138 -1.581 1.163 0.010 -0.132 0.064 0.1336987668 218 0.138 -1.581 1.163 0.012 -0.132 0.064 0.1336981293 241 0.138 -1.581 1.163 0.012 -0.132 0.048 0.1336249538 244 0.128 -1.592 1.156 0.014 -0.132 0.033 0.1335438535 251 0.129 -1.591 1.157 0.014 -0.132 0.034 0.1335415787 252 0.129 -1.590 1.157 0.014 -0.132 0.035 0.1335407690 257 0.129 -1.590 1.157 0.014 -0.132 0.035 0.1335407147 261 0.129 -1.590 1.157 0.014 -0.132 0.035 0.1335406048 270 0.129 -1.590 1.157 0.014 -0.132 0.038 0.1335310703 272 0.129 -1.590 1.157 0.014 -0.132 0.040 0.1335282673 273 0.129 -1.590 1.157 0.014 -0.132 0.041 0.1335277339 282 0.129 -1.581 1.157 0.014 -0.132 0.041 0.1334871275 283 0.129 -1.579 1.157 0.014 -0.132 0.041 0.1334814295 287 0.129 -1.577 1.157 0.014 -0.132 0.041 0.1334805825 301 0.129 -1.577 1.152 0.014 -0.132 0.041 0.1334726852 312 0.129 -1.577 1.152 0.015 -0.132 0.041 0.1334665716 313 0.129 -1.577 1.152 0.017 -0.132 0.041 0.1334652903 324 0.129 -1.577 1.152 0.017 -0.135 0.041 0.1334594948 328 0.120 -1.588 1.146 0.019 -0.135 0.026 0.1334288625 332 0.123 -1.584 1.149 0.018 -0.135 0.031 0.1334217989 334 0.123 -1.584 1.148 0.018 -0.135 0.031 0.1334216584 339 0.123 -1.584 1.149 0.018 -0.135 0.031 0.1334215674 341 0.123 -1.584 1.149 0.018 -0.135 0.031 0.1334214761 344 0.109 -1.587 1.134 0.024 -0.137 0.014 0.1333468299 351 0.107 -1.588 1.133 0.025 -0.138 0.012 0.1333424901 352 0.106 -1.588 1.132 0.026 -0.138 0.011 0.1333423748 353 0.106 -1.588 1.132 0.025 -0.138 0.011 0.1333422128 354 0.106 -1.588 1.132 0.025 -0.138 0.011 0.1333421542 374 0.112 -1.581 1.136 0.024 -0.138 0.021 0.1333064110 380 0.112 -1.581 1.136 0.024 -0.138 0.021 0.1333063697 411 0.112 -1.581 1.136 0.022 -0.138 0.021 0.1332996639 421 0.112 -1.581 1.136 0.022 -0.137 0.021 0.1332967946 422 0.112 -1.581 1.136 0.022 -0.135 0.021 0.1332967036 430 0.107 -1.582 1.131 0.025 -0.136 0.014 0.1332811809 431 0.106 -1.582 1.130 0.025 -0.136 0.013 0.1332794866 434 0.106 -1.582 1.130 0.025 -0.136 0.013 0.1332792467 451 0.106 -1.582 1.130 0.025 -0.136 0.011 0.1332780862 459 0.108 -1.579 1.131 0.025 -0.136 0.015 0.1332721868 460 0.108 -1.580 1.131 0.025 -0.136 0.015 0.1332718205 461 0.108 -1.580 1.131 0.025 -0.136 0.014 0.1332717118 470 0.108 -1.580 1.131 0.025 -0.136 0.014 0.1332716711 482 0.108 -1.580 1.139 0.025 -0.136 0.014 0.1332685167 483 0.108 -1.580 1.135 0.025 -0.136 0.014 0.1332621981 494 0.108 -1.580 1.135 0.022 -0.136 0.014 0.1332613604 496 0.108 -1.580 1.135 0.023 -0.136 0.014 0.1332588580 508 0.108 -1.580 1.135 0.023 -0.137 0.014 0.1332585011 514 0.102 -1.581 1.130 0.025 -0.138 0.008 0.1332576465 515 0.105 -1.581 1.133 0.024 -0.138 0.011 0.1332523634 516 0.105 -1.581 1.133 0.024 -0.138 0.011 0.1332522537 518 0.105 -1.581 1.133 0.024 -0.138 0.011 0.1332522008 526 0.105 -1.579 1.136 0.023 -0.139 0.009 0.1332483876 586 0.106 -1.580 1.136 0.023 -0.135 0.013 0.1332471225 587 0.106 -1.580 1.136 0.023 -0.136 0.013 0.1332467187 594 0.103 -1.581 1.133 0.024 -0.137 0.010 0.1332410557 Powell done niters = 6 Computing relative cost 0 -25.0 -25.0 -25.0 0.987108 1 -25.0 -25.0 25.0 1.009174 2 -25.0 25.0 -25.0 0.994077 3 -25.0 25.0 25.0 1.024224 4 25.0 -25.0 -25.0 1.032857 5 25.0 -25.0 25.0 1.005481 6 25.0 25.0 -25.0 0.980632 7 25.0 25.0 25.0 1.024402 REL: 8 0.133241 8.057954 1.007244 rel = 0.132283 Number of iterations 6 Min cost was 0.133241 Number of FunctionCalls 602 TolPowell 0.000100 nMaxItersPowell 36 OptimizationTime 1.771000 sec Parameters at optimum (transmm) 0.10308 -1.58084 1.13322 Parameters at optimum (rotdeg) 0.02365 -0.13659 0.00979 Final costs ---------------- Number of surface hits 3047 WM Intensity 56.4536 +/- 7.1833 Ctx Intensity 67.5397 +/- 7.6173 Pct Contrast 17.8999 +/- 12.3774 Cost 0.1332 RelCost 0.4855 Reg at min cost was 0.999 -0.029 -0.023 0.034; 0.022 -0.039 0.999 0.608; -0.030 -0.999 -0.039 -0.487; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/bbr.pass1.dat, type = 14 Original Reg 0.999 -0.032 -0.023 -0.073; 0.022 -0.040 0.999 2.189; -0.033 -0.999 -0.039 -1.621; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg -0.000 -0.002 0.000 -0.107; -0.000 -0.000 -0.000 1.580; -0.002 0.000 -0.000 -1.134; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 1.928128 Computing change in rh position Surface RMS Diff (mm) 1.965314 2.053568 mri_segreg done mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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/sub016/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/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/sub016/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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/sub016/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5 sysname Linux hostname snake6 machine x86_64 user fkaule movvol /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/tmp.bbregister.24421/bbr.pass1.dat subject sub016 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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 1376990004 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.999 -0.029 -0.023 0.034; 0.022 -0.039 0.999 0.608; -0.030 -0.999 -0.039 -0.487; 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 1.013674 1 -25.0 -25.0 25.0 0.994273 2 -25.0 25.0 -25.0 0.995462 3 -25.0 25.0 25.0 1.013802 4 25.0 -25.0 -25.0 1.027246 5 25.0 -25.0 25.0 1.007479 6 25.0 25.0 -25.0 0.998557 7 25.0 25.0 25.0 1.024932 REL: 8 0.141688 8.075426 1.009428 rel = 0.140364 Initial costs ---------------- Number of surface hits 304481 WM Intensity 56.5409 +/- 7.1624 Ctx Intensity 67.6348 +/- 7.7629 Pct Contrast 17.8592 +/- 12.5660 Cost 0.1417 RelCost 0.1404 ------------------------------------ Brute force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.1471 0.1471 0.0 3 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 0.1459 0.1459 0.0 9 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 -0.1000 0.1439 0.1439 0.0 12 -0.1000 -0.1000 -0.1000 0.0000 0.0000 -0.1000 0.1434 0.1434 0.0 13 -0.1000 -0.1000 -0.1000 0.0000 0.0000 0.0000 0.1426 0.1426 0.0 22 -0.1000 -0.1000 -0.1000 0.1000 0.0000 0.0000 0.1399 0.1399 0.0 39 -0.1000 -0.1000 0.0000 0.0000 0.0000 -0.1000 0.1396 0.1396 0.0 40 -0.1000 -0.1000 0.0000 0.0000 0.0000 0.0000 0.1377 0.1377 0.0 49 -0.1000 -0.1000 0.0000 0.1000 0.0000 0.0000 0.1362 0.1362 0.0 67 -0.1000 -0.1000 0.1000 0.0000 0.0000 0.0000 0.1344 0.1344 0.0 130 -0.1000 0.0000 0.0000 0.1000 0.0000 0.0000 0.1344 0.1344 0.0 148 -0.1000 0.0000 0.1000 0.0000 0.0000 0.0000 0.1342 0.1342 0.0 157 -0.1000 0.0000 0.1000 0.1000 0.0000 0.0000 0.1342 0.1342 0.0 211 -0.1000 0.1000 0.0000 0.1000 0.0000 0.0000 0.1332 0.1332 0.0 Brute Force -------------------------- Min cost was 0.133165 Number of iterations 729 Search time 2.128000 sec Parameters at best (transmm, rotdeg) -0.100 0.100 0.000 0.100 0.000 0.000 -------------------------------------------- Starting Powell Minimization Init Powel Params dof = 6 0 -0.1 1 0.1 2 0 3 0.1 4 0 5 0 7 -0.040 0.100 0.000 0.100 0.000 0.000 0.1383786066 8 -0.060 0.100 0.000 0.100 0.000 0.000 0.1383350291 10 -0.059 0.100 0.000 0.100 0.000 0.000 0.1383349480 19 -0.059 0.196 0.000 0.100 0.000 0.000 0.1372708911 28 -0.059 0.196 0.126 0.100 0.000 0.000 0.1360247476 29 -0.059 0.196 0.120 0.100 0.000 0.000 0.1360163550 30 -0.059 0.196 0.116 0.100 0.000 0.000 0.1360147204 39 -0.059 0.196 0.116 0.051 0.000 0.000 0.1354389563 40 -0.059 0.196 0.116 0.044 0.000 0.000 0.1354184637 41 -0.059 0.196 0.116 0.038 0.000 0.000 0.1354155472 42 -0.059 0.196 0.116 0.040 0.000 0.000 0.1354152911 50 -0.059 0.196 0.116 0.040 -0.061 0.000 0.1348322987 52 -0.059 0.196 0.116 0.040 -0.065 0.000 0.1348295650 53 -0.059 0.196 0.116 0.040 -0.064 0.000 0.1348295083 61 -0.059 0.196 0.116 0.040 -0.064 0.015 0.1348115263 62 -0.059 0.196 0.116 0.040 -0.064 0.013 0.1348100653 63 -0.059 0.196 0.116 0.040 -0.064 0.012 0.1348097944 72 -0.023 0.196 0.116 0.040 -0.064 0.012 0.1347987256 73 -0.039 0.196 0.116 0.040 -0.064 0.012 0.1347666581 83 -0.039 0.189 0.116 0.040 -0.064 0.012 0.1347613712 92 -0.039 0.189 0.182 0.040 -0.064 0.012 0.1345687690 93 -0.039 0.189 0.167 0.040 -0.064 0.012 0.1345484474 95 -0.039 0.189 0.162 0.040 -0.064 0.012 0.1345484171 97 -0.039 0.189 0.164 0.040 -0.064 0.012 0.1345479816 106 -0.039 0.189 0.164 0.026 -0.064 0.012 0.1344668773 107 -0.039 0.189 0.164 0.016 -0.064 0.012 0.1344402774 108 -0.039 0.189 0.164 0.012 -0.064 0.012 0.1344367260 117 -0.039 0.189 0.164 0.012 -0.067 0.012 0.1344335818 118 -0.039 0.189 0.164 0.012 -0.071 0.012 0.1344296615 120 -0.039 0.189 0.164 0.012 -0.076 0.012 0.1344282299 122 -0.039 0.189 0.164 0.012 -0.075 0.012 0.1344281565 130 -0.039 0.189 0.164 0.012 -0.075 0.026 0.1344084441 131 -0.039 0.189 0.164 0.012 -0.075 0.025 0.1344074875 132 -0.039 0.189 0.164 0.012 -0.075 0.023 0.1344071491 134 -0.019 0.182 0.212 -0.015 -0.085 0.035 0.1343182007 140 -0.027 0.185 0.194 -0.005 -0.081 0.030 0.1343139430 141 -0.024 0.184 0.201 -0.009 -0.083 0.032 0.1343115115 142 -0.024 0.184 0.201 -0.009 -0.082 0.032 0.1343114196 144 -0.024 0.184 0.200 -0.009 -0.082 0.032 0.1343114161 145 -0.024 0.184 0.201 -0.009 -0.082 0.032 0.1343113993 146 -0.024 0.184 0.201 -0.009 -0.082 0.032 0.1343113763 156 -0.023 0.184 0.201 -0.009 -0.082 0.032 0.1343113219 165 -0.023 0.168 0.201 -0.009 -0.082 0.032 0.1342921102 168 -0.023 0.169 0.201 -0.009 -0.082 0.032 0.1342919357 186 -0.023 0.169 0.201 -0.010 -0.082 0.032 0.1342918736 194 -0.023 0.169 0.201 -0.010 -0.077 0.032 0.1342895233 196 -0.023 0.169 0.201 -0.010 -0.076 0.032 0.1342893447 204 -0.016 0.167 0.219 -0.020 -0.080 0.036 0.1342801141 205 -0.017 0.167 0.215 -0.018 -0.079 0.035 0.1342795104 206 -0.017 0.167 0.215 -0.018 -0.079 0.035 0.1342794935 207 -0.017 0.167 0.215 -0.018 -0.079 0.035 0.1342794915 208 -0.017 0.167 0.215 -0.018 -0.079 0.035 0.1342794695 220 -0.018 0.167 0.215 -0.018 -0.079 0.035 0.1342793241 228 -0.018 0.166 0.215 -0.018 -0.079 0.035 0.1342780381 229 -0.018 0.163 0.215 -0.018 -0.079 0.035 0.1342773814 231 -0.018 0.164 0.215 -0.018 -0.079 0.035 0.1342773395 240 -0.018 0.164 0.215 -0.018 -0.079 0.034 0.1342769522 251 -0.018 0.164 0.215 -0.014 -0.079 0.034 0.1342747860 269 -0.017 0.163 0.219 -0.016 -0.080 0.035 0.1342731830 270 -0.016 0.163 0.220 -0.017 -0.080 0.035 0.1342730505 271 -0.016 0.163 0.220 -0.017 -0.080 0.035 0.1342730021 274 -0.016 0.163 0.221 -0.017 -0.080 0.036 0.1342729395 288 -0.018 0.163 0.221 -0.017 -0.080 0.036 0.1342724065 306 -0.018 0.163 0.221 -0.017 -0.080 0.034 0.1342722990 307 -0.018 0.163 0.221 -0.017 -0.080 0.033 0.1342721992 321 -0.018 0.163 0.221 -0.016 -0.080 0.033 0.1342720073 330 -0.018 0.163 0.221 -0.016 -0.078 0.033 0.1342712016 341 -0.018 0.163 0.222 -0.017 -0.078 0.033 0.1342711738 344 -0.018 0.163 0.222 -0.017 -0.078 0.033 0.1342711728 357 -0.020 0.163 0.222 -0.017 -0.078 0.033 0.1342708052 366 -0.020 0.164 0.222 -0.017 -0.078 0.033 0.1342707798 375 -0.020 0.164 0.222 -0.017 -0.078 0.032 0.1342707229 384 -0.020 0.164 0.222 -0.016 -0.078 0.032 0.1342706602 393 -0.020 0.164 0.222 -0.016 -0.077 0.032 0.1342704408 417 -0.021 0.164 0.222 -0.016 -0.077 0.032 0.1342703886 454 -0.021 0.164 0.222 -0.016 -0.076 0.032 0.1342703700 466 -0.021 0.164 0.222 -0.016 -0.076 0.032 0.1342703523 Powell done niters = 7 Computing relative cost 0 -25.0 -25.0 -25.0 1.014724 1 -25.0 -25.0 25.0 0.993885 2 -25.0 25.0 -25.0 0.993645 3 -25.0 25.0 25.0 1.012720 4 25.0 -25.0 -25.0 1.028029 5 25.0 -25.0 25.0 1.005782 6 25.0 25.0 -25.0 0.999341 7 25.0 25.0 25.0 1.024793 REL: 8 0.134270 8.072920 1.009115 rel = 0.133058 Number of iterations 7 Min cost was 0.134270 Number of FunctionCalls 527 TolPowell 0.000000 nMaxItersPowell 36 OptimizationTime 69.051000 sec Parameters at optimum (transmm) -0.02074 0.16374 0.22181 Parameters at optimum (rotdeg) -0.01581 -0.07641 0.03234 Final costs ---------------- Number of surface hits 304481 WM Intensity 56.5318 +/- 7.1402 Ctx Intensity 67.5968 +/- 7.7119 Pct Contrast 17.8233 +/- 12.4061 Cost 0.1343 RelCost 0.1404 Reg at min cost was 0.999 -0.028 -0.023 0.013; 0.022 -0.040 0.999 0.772; -0.029 -0.999 -0.039 -0.265; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.dat, type = 14 Original Reg 0.999 -0.029 -0.023 0.034; 0.022 -0.039 0.999 0.608; -0.030 -0.999 -0.039 -0.487; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg -0.000 -0.001 0.001 0.020; -0.001 0.000 0.000 -0.164; -0.001 0.000 0.000 -0.222; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 0.244708 Computing change in rh position Surface RMS Diff (mm) 0.284066 0.379271 mri_segreg done tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.dat --noedit --ltaout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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/sub016/mri/orig/T2raw.mgz reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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 -0.028 -0.023 0.013; 0.022 -0.040 0.999 0.772; -0.029 -0.999 -0.039 -0.265; 0.000 0.000 0.000 1.000; float2int = 0 --------------------------------------- INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/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/sub016/mri/orig/T2raw.mgz Tmov: -------------------- -0.700 0.000 0.000 95.886; 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 -0.028 -0.023 0.013; 0.022 -0.040 0.999 0.772; -0.029 -0.999 -0.039 -0.265; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub016 RegMat --------------------------- 0.999 -0.028 -0.023 0.013; 0.022 -0.040 0.999 0.772; -0.029 -0.999 -0.039 -0.265; 0.000 0.000 0.000 1.000; transformed matrix: 1.000 -0.003 -0.000 0.059; 0.003 1.000 0.006 -0.142; 0.000 -0.006 1.000 -0.599; 0.000 0.000 0.000 1.000; transformed matrix: 0.699 -0.019 -0.015 38.752; -0.016 -0.026 -0.666 263.892; 0.020 0.666 -0.026 2.326; 0.000 0.000 0.000 1.000; Cleaning up Started at Thu Aug 8 23:21:39 CEST 2013 Ended at Thu Aug 8 23:33:58 CEST 2013 BBR-Run-Time-Sec 739 bbregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub016/mri/transforms/T2raw.dat --surf