Logfile for bbregister Thu Aug 8 22:52:57 CEST 2013 setenv SUBJECTS_DIR /home/data/exppsy/forrest_gump/openfmri.org/freesurfer cd /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/scripts /opt/freesurfer/5.3.0/bin/bbregister --s sub008 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/orig/T2raw.mgz --lta /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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/sub008/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/orig/T2raw.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/orig/T2raw.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.998831, -0.0240037, -0.0419561) j_ras = (-0.0295702, 0.990055, 0.137541) k_ras = (-0.0382373, -0.138621, 0.989607) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii... fslregister --s sub008 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister --dof 6 --fsvol brainmask.mgz Log file is /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat.fslregister.log Thu Aug 8 22:53:06 CEST 2013 --s sub008 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --niters 1 --maxangle 90 --nobetmov --tmp /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/refvol.fslregister.nii mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/brainmask.mgz /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/brainmask.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 2.32831e-09, -3.72529e-09) j_ras = (7.45058e-09, 2.98023e-08, -1) k_ras = (-2.79397e-09, 1, 0) writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/refvol.fslregister.nii... -------------------------------------- /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/scripts mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/movvol.fslregister.nii --frame 0 mri_convert /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/transforms/tmp.bbregister.16113/template.nii... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-0.998831, -0.0240037, -0.0419561) j_ras = (-0.0295702, 0.990055, 0.137541) k_ras = (-0.0382373, -0.138621, 0.989607) keeping frame 0 writing to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/movvol.fslregister.nii... Mov determinant is -0.311055 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/scripts tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/movvol.fslregister.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/reg0.16153.dat --regheader --fslregout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat.fsl.mat0 --s sub008 --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/sub008/mri/transforms/tmp.bbregister.16113/fslregister/movvol.fslregister.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/reg0.16153.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/sub008/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/sub008/mri/transforms/tmp.bbregister.16113/fslregister/movvol.fslregister.nii Tmov: -------------------- -0.700 0.000 0.000 95.883; 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 0.024 0.042 0.000; -0.038 -0.139 0.990 0.000; 0.030 -0.990 -0.138 -0.000; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.999 0.024 0.042 0.000; -0.038 -0.139 0.990 0.000; 0.030 -0.990 -0.138 -0.000; 0.000 0.000 0.000 1.000; Determinant 1 subject = sub008 RegMat --------------------------- 0.999 0.024 0.042 0.000; -0.038 -0.139 0.990 0.000; 0.030 -0.990 -0.138 -0.000; 0.000 0.000 0.000 1.000; FSLOUTPUTTYPE NIFTI tkreg2FSL: mov det = -0.311055, ref det = -1 Thu Aug 8 22:53:22 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/transforms/tmp.bbregister.16113/fslregister/fslmat0.trans.mat -schedule /usr/share/fsl/5.0/etc/flirtsch/xyztrans.sch -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat.fsl.mat0 Thu Aug 8 22:58:14 CEST 2013 /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/scripts flirt.fsl -ref /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/refvol.fslregister.nii -in /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat.fsl.mat -init /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/fslregister/fslmat0.trans.mat -schedule /opt/freesurfer/5.3.0/bin/flirt.newdefault.20080811.sch tkregister2_cmdl --s sub008 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --fslreg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat.fsl.mat --noedit tkregister_tcl /opt/freesurfer/5.3.0/tktools/tkregister2.tcl ---- FSL registration matrix -------- 0.998 0.039 0.042 22.232; 0.047 -0.135 -0.990 267.653; -0.033 0.990 -0.136 21.515; 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/sub008/mri/transforms/tmp.bbregister.16113/template.nii reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/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/sub008/mri/transforms/tmp.bbregister.16113/template.nii Tmov: -------------------- -0.700 0.000 0.000 95.883; 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 = -0.311055, ref det = -1 ---- Input registration matrix (computed) -------- 0.998 0.033 0.047 0.342; -0.042 -0.136 0.990 0.143; 0.039 -0.990 -0.135 -0.375; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- 0.998 0.033 0.047 0.342; -0.042 -0.136 0.990 0.143; 0.039 -0.990 -0.135 -0.375; 0.000 0.000 0.000 1.000; Determinant 0.999999 subject = sub008 RegMat --------------------------- 0.998 0.033 0.047 0.342; -0.042 -0.136 0.990 0.143; 0.039 -0.990 -0.135 -0.375; 0.000 0.000 0.000 1.000; Started at Thu Aug 8 22:53:06 CEST 2013 Ended at Thu Aug 8 23:04:20 CEST 2013 fslregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --surf orig mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/transforms/tmp.bbregister.16113/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/reg.init.dat subject sub008 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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 1376473579 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.998 0.033 0.047 0.342; -0.042 -0.136 0.990 0.143; 0.039 -0.990 -0.135 -0.375; 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 1.043830 1 -25.0 -25.0 25.0 1.044085 2 -25.0 25.0 -25.0 1.009641 3 -25.0 25.0 25.0 1.001340 4 25.0 -25.0 -25.0 1.014469 5 25.0 -25.0 25.0 1.027498 6 25.0 25.0 -25.0 0.998495 7 25.0 25.0 25.0 1.006455 REL: 8 0.179395 8.145813 1.018227 rel = 0.176183 Initial costs ---------------- Number of surface hits 2602 WM Intensity 54.0537 +/- 8.2981 Ctx Intensity 67.1441 +/- 8.6852 Pct Contrast 21.7337 +/- 15.7014 Cost 0.1794 RelCost 0.1762 ------------------------------------ Brute force preopt -4 4 4, n = 729 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 1.0033 1.0033 0.0 1 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 0.9538 0.9538 0.0 15 -4.0000 -4.0000 -4.0000 0.0000 4.0000 -4.0000 0.8588 0.8588 0.0 39 -4.0000 -4.0000 0.0000 0.0000 0.0000 -4.0000 0.8477 0.8477 0.0 57 -4.0000 -4.0000 4.0000 -4.0000 0.0000 -4.0000 0.8150 0.8150 0.0 102 -4.0000 0.0000 -4.0000 4.0000 0.0000 -4.0000 0.7977 0.7977 0.0 120 -4.0000 0.0000 0.0000 0.0000 0.0000 -4.0000 0.6736 0.6736 0.0 346 0.0000 0.0000 -4.0000 4.0000 0.0000 0.0000 0.6519 0.6519 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.1794 0.1794 0.0 Brute Force -------------------------- Min cost was 0.179395 Number of iterations 729 Search time 2.478000 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 0.083 0.000 0.000 0.000 0.000 0.000 0.1788908257 11 0.103 0.000 0.000 0.000 0.000 0.000 0.1788113664 12 0.102 0.000 0.000 0.000 0.000 0.000 0.1788109967 13 0.101 0.000 0.000 0.000 0.000 0.000 0.1788101963 14 0.094 0.000 0.000 0.000 0.000 0.000 0.1788087307 15 0.096 0.000 0.000 0.000 0.000 0.000 0.1788083538 16 0.097 0.000 0.000 0.000 0.000 0.000 0.1788083353 17 0.098 0.000 0.000 0.000 0.000 0.000 0.1788082993 23 0.098 -0.618 0.000 0.000 0.000 0.000 0.1698593437 25 0.098 -0.369 0.000 0.000 0.000 0.000 0.1658068839 27 0.098 -0.228 0.000 0.000 0.000 0.000 0.1637342718 29 0.098 -0.282 0.000 0.000 0.000 0.000 0.1633513225 32 0.098 -0.278 0.000 0.000 0.000 0.000 0.1633322451 34 0.098 -0.279 0.000 0.000 0.000 0.000 0.1633322301 37 0.098 -0.279 1.000 0.000 0.000 0.000 0.1222905379 41 0.098 -0.279 0.618 0.000 0.000 0.000 0.1186472964 42 0.098 -0.279 0.762 0.000 0.000 0.000 0.1151775923 43 0.098 -0.279 0.775 0.000 0.000 0.000 0.1150861281 53 0.098 -0.279 0.775 0.162 0.000 0.000 0.1101850265 54 0.098 -0.279 0.775 0.164 0.000 0.000 0.1101415146 56 0.098 -0.279 0.775 0.201 0.000 0.000 0.1096902317 67 0.098 -0.279 0.775 0.201 -0.014 0.000 0.1089673571 68 0.098 -0.279 0.775 0.201 -0.054 0.000 0.1075960717 70 0.098 -0.279 0.775 0.201 -0.059 0.000 0.1075513431 71 0.098 -0.279 0.775 0.201 -0.061 0.000 0.1075435169 72 0.098 -0.279 0.775 0.201 -0.062 0.000 0.1075420881 84 0.098 -0.279 0.775 0.201 -0.062 0.001 0.1075393859 85 0.098 -0.279 0.775 0.201 -0.062 0.005 0.1075338245 87 0.098 -0.279 0.775 0.201 -0.062 0.006 0.1075331917 98 0.132 -0.279 0.775 0.201 -0.062 0.006 0.1073429426 99 0.126 -0.279 0.775 0.201 -0.062 0.006 0.1072904526 100 0.120 -0.279 0.775 0.201 -0.062 0.006 0.1072734213 113 0.120 -0.313 0.775 0.201 -0.062 0.006 0.1072107458 115 0.120 -0.316 0.775 0.201 -0.062 0.006 0.1072043866 116 0.120 -0.322 0.775 0.201 -0.062 0.006 0.1072011418 117 0.120 -0.321 0.775 0.201 -0.062 0.006 0.1072010748 125 0.120 -0.321 0.529 0.201 -0.062 0.006 0.1055272246 126 0.120 -0.321 0.594 0.201 -0.062 0.006 0.1055181598 127 0.120 -0.321 0.564 0.201 -0.062 0.006 0.1053558387 128 0.120 -0.321 0.562 0.201 -0.062 0.006 0.1053517904 129 0.120 -0.321 0.550 0.201 -0.062 0.006 0.1053505829 130 0.120 -0.321 0.556 0.201 -0.062 0.006 0.1053472670 132 0.120 -0.321 0.557 0.201 -0.062 0.006 0.1053458770 133 0.120 -0.321 0.559 0.201 -0.062 0.006 0.1053446870 142 0.120 -0.321 0.559 0.234 -0.062 0.006 0.1047423037 144 0.120 -0.321 0.559 0.242 -0.062 0.006 0.1047401270 145 0.120 -0.321 0.559 0.238 -0.062 0.006 0.1047344088 146 0.120 -0.321 0.559 0.237 -0.062 0.006 0.1047336598 155 0.120 -0.321 0.559 0.237 -0.091 0.006 0.1043849282 157 0.120 -0.321 0.559 0.237 -0.086 0.006 0.1043670149 158 0.120 -0.321 0.559 0.237 -0.085 0.006 0.1043669088 166 0.120 -0.321 0.559 0.237 -0.085 0.128 0.1040699852 171 0.120 -0.321 0.559 0.237 -0.085 0.142 0.1040177846 173 0.120 -0.321 0.559 0.237 -0.085 0.139 0.1040152898 174 0.120 -0.321 0.559 0.237 -0.085 0.140 0.1040148816 183 0.194 -0.321 0.559 0.237 -0.085 0.140 0.1022066826 184 0.244 -0.321 0.559 0.237 -0.085 0.140 0.1020288834 185 0.230 -0.321 0.559 0.237 -0.085 0.140 0.1019663545 186 0.227 -0.321 0.559 0.237 -0.085 0.140 0.1019609742 187 0.221 -0.321 0.559 0.237 -0.085 0.140 0.1019521303 198 0.221 -0.243 0.559 0.237 -0.085 0.140 0.1018731015 199 0.221 -0.277 0.559 0.237 -0.085 0.140 0.1015985923 200 0.221 -0.279 0.559 0.237 -0.085 0.140 0.1015701679 201 0.221 -0.295 0.559 0.237 -0.085 0.140 0.1014672431 203 0.221 -0.293 0.559 0.237 -0.085 0.140 0.1014668992 205 0.221 -0.294 0.559 0.237 -0.085 0.140 0.1014659053 214 0.221 -0.294 0.541 0.237 -0.085 0.140 0.1013283221 216 0.221 -0.294 0.544 0.237 -0.085 0.140 0.1013216013 225 0.221 -0.294 0.544 0.247 -0.085 0.140 0.1011830177 227 0.221 -0.294 0.544 0.252 -0.085 0.140 0.1011828275 228 0.221 -0.294 0.544 0.250 -0.085 0.140 0.1011767927 238 0.221 -0.294 0.544 0.250 -0.103 0.140 0.1008218233 240 0.221 -0.294 0.544 0.250 -0.106 0.140 0.1008211114 242 0.221 -0.294 0.544 0.250 -0.105 0.140 0.1008194853 243 0.221 -0.294 0.544 0.250 -0.104 0.140 0.1008189931 251 0.221 -0.294 0.544 0.250 -0.104 0.132 0.1007846386 256 0.221 -0.294 0.544 0.250 -0.104 0.130 0.1007759856 258 0.221 -0.294 0.544 0.250 -0.104 0.128 0.1007734132 269 0.228 -0.294 0.544 0.250 -0.104 0.128 0.1007457872 282 0.228 -0.293 0.544 0.250 -0.104 0.128 0.1007446679 292 0.228 -0.293 0.536 0.250 -0.104 0.128 0.1007298160 293 0.228 -0.293 0.538 0.250 -0.104 0.128 0.1007266778 294 0.228 -0.293 0.539 0.250 -0.104 0.128 0.1007260098 302 0.228 -0.293 0.539 0.251 -0.104 0.128 0.1007223722 305 0.228 -0.293 0.539 0.252 -0.104 0.128 0.1007205440 316 0.228 -0.293 0.539 0.252 -0.111 0.128 0.1006606708 317 0.228 -0.293 0.539 0.252 -0.113 0.128 0.1006594634 327 0.228 -0.293 0.539 0.252 -0.113 0.129 0.1006543381 329 0.228 -0.293 0.539 0.252 -0.113 0.135 0.1006507076 330 0.228 -0.293 0.539 0.252 -0.113 0.133 0.1006467025 333 0.236 -0.292 0.533 0.254 -0.122 0.137 0.1005905133 358 0.242 -0.292 0.533 0.254 -0.122 0.137 0.1005456170 359 0.247 -0.292 0.533 0.254 -0.122 0.137 0.1005391218 360 0.246 -0.292 0.533 0.254 -0.122 0.137 0.1005378932 361 0.245 -0.292 0.533 0.254 -0.122 0.137 0.1005377609 373 0.245 -0.294 0.533 0.254 -0.122 0.137 0.1005306639 374 0.245 -0.295 0.533 0.254 -0.122 0.137 0.1005305569 384 0.245 -0.295 0.532 0.254 -0.122 0.137 0.1005238598 386 0.245 -0.295 0.529 0.254 -0.122 0.137 0.1005187322 397 0.245 -0.295 0.529 0.255 -0.122 0.137 0.1005184084 408 0.245 -0.295 0.529 0.255 -0.122 0.141 0.1005159489 409 0.245 -0.295 0.529 0.255 -0.122 0.140 0.1005140750 416 0.248 -0.295 0.527 0.256 -0.126 0.141 0.1005134793 417 0.247 -0.295 0.527 0.255 -0.124 0.141 0.1005116193 418 0.247 -0.295 0.528 0.255 -0.124 0.141 0.1005111861 436 0.251 -0.295 0.528 0.255 -0.124 0.141 0.1005066919 438 0.250 -0.295 0.528 0.255 -0.124 0.141 0.1005039711 463 0.250 -0.295 0.526 0.255 -0.124 0.141 0.1005034930 484 0.250 -0.295 0.526 0.255 -0.124 0.143 0.1005006065 493 0.250 -0.295 0.526 0.255 -0.124 0.143 0.1005004948 495 0.250 -0.295 0.526 0.255 -0.125 0.144 0.1004999950 497 0.250 -0.295 0.526 0.255 -0.124 0.144 0.1004999226 498 0.250 -0.295 0.526 0.255 -0.124 0.144 0.1004997324 503 0.253 -0.295 0.525 0.255 -0.125 0.147 0.1004954103 513 0.253 -0.295 0.525 0.255 -0.125 0.147 0.1004952829 517 0.253 -0.295 0.525 0.255 -0.125 0.147 0.1004951331 548 0.253 -0.293 0.525 0.255 -0.125 0.147 0.1004912325 559 0.253 -0.293 0.526 0.255 -0.125 0.147 0.1004901419 581 0.253 -0.293 0.526 0.255 -0.125 0.146 0.1004898660 585 0.256 -0.293 0.524 0.256 -0.125 0.149 0.1004886170 589 0.255 -0.293 0.525 0.255 -0.125 0.148 0.1004878207 590 0.255 -0.293 0.525 0.255 -0.125 0.147 0.1004878069 593 0.255 -0.293 0.525 0.255 -0.125 0.147 0.1004876630 Powell done niters = 6 Computing relative cost 0 -25.0 -25.0 -25.0 1.035433 1 -25.0 -25.0 25.0 1.043363 2 -25.0 25.0 -25.0 1.029948 3 -25.0 25.0 25.0 1.016018 4 25.0 -25.0 -25.0 1.046063 5 25.0 -25.0 25.0 1.009500 6 25.0 25.0 -25.0 1.037092 7 25.0 25.0 25.0 0.987505 REL: 8 0.100488 8.204921 1.025615 rel = 0.0979779 Number of iterations 6 Min cost was 0.100488 Number of FunctionCalls 597 TolPowell 0.000100 nMaxItersPowell 36 OptimizationTime 1.956000 sec Parameters at optimum (transmm) 0.25495 -0.29295 0.52496 Parameters at optimum (rotdeg) 0.25548 -0.12510 0.14742 Final costs ---------------- Number of surface hits 2602 WM Intensity 53.6288 +/- 7.8362 Ctx Intensity 66.6557 +/- 8.1514 Pct Contrast 21.7958 +/- 14.0694 Cost 0.1005 RelCost 0.1762 Reg at min cost was 0.998 0.036 0.044 0.598; -0.039 -0.132 0.991 -0.147; 0.041 -0.991 -0.130 0.151; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/bbr.pass1.dat, type = 14 Original Reg 0.998 0.033 0.047 0.342; -0.042 -0.136 0.990 0.143; 0.039 -0.990 -0.135 -0.375; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg -0.000 -0.003 0.002 -0.255; -0.002 -0.005 -0.001 0.290; -0.002 0.001 -0.005 -0.526; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 0.814749 Computing change in rh position Surface RMS Diff (mm) 0.836312 1.067895 mri_segreg done mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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/sub008/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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/sub008/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/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/sub008/mri/transforms/tmp.bbregister.16113/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/tmp.bbregister.16113/bbr.pass1.dat subject sub008 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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 1376182120 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.998 0.036 0.044 0.598; -0.039 -0.132 0.991 -0.147; 0.041 -0.991 -0.130 0.151; 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 1.019261 1 -25.0 -25.0 25.0 0.999984 2 -25.0 25.0 -25.0 1.014832 3 -25.0 25.0 25.0 1.014843 4 25.0 -25.0 -25.0 1.016792 5 25.0 -25.0 25.0 1.014825 6 25.0 25.0 -25.0 1.019809 7 25.0 25.0 25.0 1.015596 REL: 8 0.105862 8.115943 1.014493 rel = 0.104349 Initial costs ---------------- Number of surface hits 258785 WM Intensity 53.7508 +/- 7.7774 Ctx Intensity 66.8362 +/- 8.3162 Pct Contrast 21.8125 +/- 13.8684 Cost 0.1059 RelCost 0.1043 ------------------------------------ Brute force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.1061 0.1061 0.0 12 -0.1000 -0.1000 -0.1000 0.0000 0.0000 -0.1000 0.1057 0.1057 0.0 19 -0.1000 -0.1000 -0.1000 0.1000 -0.1000 0.0000 0.1040 0.1040 0.0 22 -0.1000 -0.1000 -0.1000 0.1000 0.0000 0.0000 0.1036 0.1036 0.0 23 -0.1000 -0.1000 -0.1000 0.1000 0.0000 0.1000 0.1035 0.1035 0.0 103 -0.1000 0.0000 -0.1000 0.1000 0.0000 0.0000 0.1025 0.1025 0.0 104 -0.1000 0.0000 -0.1000 0.1000 0.0000 0.1000 0.1025 0.1025 0.0 121 -0.1000 0.0000 0.0000 0.0000 0.0000 0.0000 0.1023 0.1023 0.0 131 -0.1000 0.0000 0.0000 0.1000 0.0000 0.1000 0.1021 0.1021 0.0 265 0.0000 -0.1000 -0.1000 0.1000 0.0000 0.0000 0.1019 0.1019 0.0 301 0.0000 -0.1000 0.1000 -0.1000 0.0000 0.0000 0.1013 0.1013 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.1005 0.1005 0.0 Brute Force -------------------------- Min cost was 0.100488 Number of iterations 729 Search time 2.528000 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 -0.092 0.000 0.000 0.000 0.000 0.000 0.1052676402 8 -0.086 0.000 0.000 0.000 0.000 0.000 0.1052645921 9 -0.085 0.000 0.000 0.000 0.000 0.000 0.1052645097 17 -0.085 0.093 0.000 0.000 0.000 0.000 0.1043808859 18 -0.085 0.089 0.000 0.000 0.000 0.000 0.1043659416 19 -0.085 0.079 0.000 0.000 0.000 0.000 0.1043537347 21 -0.085 0.078 0.000 0.000 0.000 0.000 0.1043535989 22 -0.085 0.077 0.000 0.000 0.000 0.000 0.1043533976 26 -0.085 0.075 0.000 0.000 0.000 0.000 0.1043532873 34 -0.085 0.075 -0.082 0.000 0.000 0.000 0.1032545545 35 -0.085 0.075 -0.136 0.000 0.000 0.000 0.1030244053 37 -0.085 0.075 -0.131 0.000 0.000 0.000 0.1030235614 38 -0.085 0.075 -0.133 0.000 0.000 0.000 0.1030231672 47 -0.085 0.075 -0.133 0.019 0.000 0.000 0.1029599146 49 -0.085 0.075 -0.133 0.018 0.000 0.000 0.1029597308 58 -0.085 0.075 -0.133 0.018 -0.021 0.000 0.1029419898 59 -0.085 0.075 -0.133 0.018 -0.014 0.000 0.1029339583 68 -0.085 0.075 -0.133 0.018 -0.014 0.040 0.1028195266 69 -0.085 0.075 -0.133 0.018 -0.014 0.036 0.1028179637 70 -0.085 0.075 -0.133 0.018 -0.014 0.035 0.1028178283 71 -0.085 0.075 -0.133 0.018 -0.014 0.034 0.1028177923 81 -0.066 0.075 -0.133 0.018 -0.014 0.034 0.1027214980 82 -0.048 0.075 -0.133 0.018 -0.014 0.034 0.1026985822 83 -0.050 0.075 -0.133 0.018 -0.014 0.034 0.1026977020 84 -0.051 0.075 -0.133 0.018 -0.014 0.034 0.1026976752 92 -0.051 0.091 -0.133 0.018 -0.014 0.034 0.1026700398 94 -0.051 0.092 -0.133 0.018 -0.014 0.034 0.1026700093 104 -0.051 0.092 -0.161 0.018 -0.014 0.034 0.1026565543 105 -0.051 0.092 -0.149 0.018 -0.014 0.034 0.1026404233 115 -0.051 0.092 -0.149 0.034 -0.014 0.034 0.1025981618 125 -0.051 0.092 -0.149 0.034 -0.019 0.034 0.1025933818 126 -0.051 0.092 -0.149 0.034 -0.020 0.034 0.1025933018 134 -0.051 0.092 -0.149 0.034 -0.020 0.057 0.1025716006 135 -0.051 0.092 -0.149 0.034 -0.020 0.051 0.1025659447 136 -0.051 0.092 -0.149 0.034 -0.020 0.049 0.1025657390 138 -0.017 0.109 -0.166 0.051 -0.026 0.065 0.1025240716 144 -0.030 0.103 -0.160 0.045 -0.024 0.059 0.1025096323 145 -0.028 0.104 -0.161 0.046 -0.024 0.060 0.1025091980 146 -0.028 0.104 -0.161 0.046 -0.024 0.060 0.1025091934 148 -0.029 0.103 -0.160 0.045 -0.024 0.060 0.1025091906 149 -0.029 0.104 -0.161 0.045 -0.024 0.060 0.1025091016 161 -0.029 0.104 -0.161 0.045 -0.024 0.068 0.1025084846 162 -0.029 0.104 -0.161 0.045 -0.024 0.064 0.1025073721 172 -0.029 0.100 -0.161 0.045 -0.024 0.065 0.1025055124 173 -0.029 0.099 -0.161 0.045 -0.024 0.065 0.1025053017 182 -0.029 0.099 -0.179 0.045 -0.024 0.065 0.1024965315 183 -0.029 0.099 -0.173 0.045 -0.024 0.065 0.1024921684 184 -0.029 0.099 -0.172 0.045 -0.024 0.065 0.1024920430 193 -0.029 0.099 -0.172 0.048 -0.024 0.065 0.1024911286 197 -0.029 0.099 -0.172 0.049 -0.024 0.065 0.1024910644 207 -0.029 0.099 -0.172 0.049 -0.023 0.065 0.1024906908 215 -0.029 0.099 -0.171 0.049 -0.023 0.065 0.1024905916 228 -0.029 0.099 -0.171 0.049 -0.023 0.063 0.1024905449 237 -0.029 0.098 -0.171 0.049 -0.023 0.063 0.1024904760 238 -0.029 0.097 -0.171 0.049 -0.023 0.063 0.1024904685 249 -0.029 0.097 -0.175 0.049 -0.023 0.063 0.1024899707 250 -0.029 0.097 -0.174 0.049 -0.023 0.063 0.1024898699 259 -0.029 0.097 -0.174 0.050 -0.023 0.063 0.1024896709 260 -0.029 0.097 -0.174 0.051 -0.023 0.063 0.1024896524 279 -0.030 0.097 -0.174 0.051 -0.023 0.063 0.1024896300 280 -0.030 0.097 -0.174 0.051 -0.023 0.063 0.1024896075 291 -0.030 0.097 -0.174 0.051 -0.023 0.064 0.1024895649 300 -0.030 0.098 -0.174 0.051 -0.023 0.064 0.1024894360 310 -0.030 0.098 -0.176 0.051 -0.023 0.064 0.1024892280 312 -0.030 0.098 -0.175 0.051 -0.023 0.064 0.1024891172 321 -0.030 0.098 -0.175 0.052 -0.023 0.064 0.1024890729 340 -0.030 0.098 -0.175 0.051 -0.022 0.064 0.1024890677 341 -0.030 0.098 -0.175 0.052 -0.023 0.064 0.1024890363 343 -0.030 0.098 -0.175 0.052 -0.023 0.064 0.1024890060 375 -0.030 0.098 -0.176 0.052 -0.023 0.064 0.1024889232 Powell done niters = 6 Computing relative cost 0 -25.0 -25.0 -25.0 1.019707 1 -25.0 -25.0 25.0 0.999204 2 -25.0 25.0 -25.0 1.015500 3 -25.0 25.0 25.0 1.016825 4 25.0 -25.0 -25.0 1.016621 5 25.0 -25.0 25.0 1.014557 6 25.0 25.0 -25.0 1.018232 7 25.0 25.0 25.0 1.014331 REL: 8 0.102489 8.114977 1.014372 rel = 0.101037 Number of iterations 6 Min cost was 0.102489 Number of FunctionCalls 465 TolPowell 0.000000 nMaxItersPowell 36 OptimizationTime 59.014000 sec Parameters at optimum (transmm) -0.03010 0.09769 -0.17621 Parameters at optimum (rotdeg) 0.05157 -0.02253 0.06379 Final costs ---------------- Number of surface hits 258785 WM Intensity 53.7752 +/- 7.8002 Ctx Intensity 66.8330 +/- 8.3074 Pct Contrast 21.7681 +/- 13.8176 Cost 0.1025 RelCost 0.1043 Reg at min cost was 0.998 0.036 0.043 0.568; -0.038 -0.131 0.991 -0.049; 0.042 -0.991 -0.129 -0.025; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/T2raw.dat, type = 14 Original Reg 0.998 0.036 0.044 0.598; -0.039 -0.132 0.991 -0.147; 0.041 -0.991 -0.130 0.151; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg -0.000 -0.001 0.001 0.030; -0.001 -0.001 -0.000 -0.098; -0.000 0.000 -0.001 0.176; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 0.187625 Computing change in rh position Surface RMS Diff (mm) 0.192733 0.239415 mri_segreg done tkregister2_cmdl --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/T2raw.dat --noedit --ltaout /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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/sub008/mri/orig/T2raw.mgz reg file /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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 0.036 0.043 0.568; -0.038 -0.131 0.991 -0.049; 0.042 -0.991 -0.129 -0.025; 0.000 0.000 0.000 1.000; float2int = 0 --------------------------------------- INFO: loading target /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/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/sub008/mri/orig/T2raw.mgz Tmov: -------------------- -0.700 0.000 0.000 95.883; 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 0.036 0.043 0.568; -0.038 -0.131 0.991 -0.049; 0.042 -0.991 -0.129 -0.025; 0.000 0.000 0.000 1.000; Determinant 0.999999 subject = sub008 RegMat --------------------------- 0.998 0.036 0.043 0.568; -0.038 -0.131 0.991 -0.049; 0.042 -0.991 -0.129 -0.025; 0.000 0.000 0.000 1.000; transformed matrix: 1.000 -0.012 -0.002 -0.253; 0.012 1.000 0.008 0.255; 0.002 -0.008 1.000 0.285; 0.000 0.000 0.000 1.000; transformed matrix: 0.699 0.028 0.025 22.617; 0.030 -0.086 -0.660 267.159; -0.025 0.661 -0.087 21.342; 0.000 0.000 0.000 1.000; Cleaning up Started at Thu Aug 8 22:52:57 CEST 2013 Ended at Thu Aug 8 23:06:16 CEST 2013 BBR-Run-Time-Sec 799 bbregister Done To check results, run: tkregister2 --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/orig/T2raw.mgz --reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub008/mri/transforms/T2raw.dat --surf