$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/sub003/scripts mri_segreg --mov /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/template.nii --init-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat --out-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/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/sub003/mri/transforms/T2raw.dat.mincost --dof 6 --nmax 36 --param /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/T2raw.dat.param --surf white --cur-reg /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/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/sub003/mri/transforms/tmp.bbregister.7576/template.nii regfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/mri/transforms/tmp.bbregister.7576/bbr.pass1.dat subject sub003 dof 6 outregfile /home/data/exppsy/forrest_gump/openfmri.org/freesurfer/sub003/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 1376293067 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg 0.998 0.051 -0.029 0.075; 0.029 0.013 1.000 0.411; 0.051 -0.999 0.011 0.109; 0.000 0.000 0.000 1.000; Initial costs ---------------- Number of surface hits 240423 WM Intensity0 64.9359 +/- 11.1877 Ctx Intensity0 79.7729 +/- 12.9062 Pct Contrast0 20.4782 +/- 13.8817 Cost 0.1335 RelCost 0.1304 Brute force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.1323 0.1323 0.0 9 -0.1000 -0.1000 -0.1000 0.0000 -0.1000 -0.1000 0.1284 0.1284 0.0 21 -0.1000 -0.1000 -0.1000 0.1000 0.0000 -0.1000 0.1280 0.1280 0.0 99 -0.1000 0.0000 -0.1000 0.1000 -0.1000 -0.1000 0.1271 0.1271 0.0 Final costs ---------------- Number of surface hits 240423 WM Intensity0 64.9338 +/- 11.2144 Ctx Intensity0 79.7146 +/- 12.8242 Pct Contrast0 20.4261 +/- 13.7529 Cost 0.1269 RelCost 0.1304 Number of iterations 7 Min cost was 0.126885 RelMinCost 0.1239 Number of FunctionCalls 534 OptimizationTime 62.002000 sec Parameters at optimum (transmm, rotdeg) -0.00261 0.10287 -0.27464 0.19921 -0.03618 -0.03386 Number of surface hits 240423 WM Intensity 64.9338 +/- 11.2144 Ctx Intensity 79.7146 +/- 12.8242 Pct Contrast 20.4261 +/- 13.7529 Cost at optimum 0.1269 RelCostOptimum 0.1239 nhits= 240423 wmmn= 64.9338 wmstd= 11.2144 constd= 13.7529 ctxmn= 79.7146 ctxstd= 12.8242 conmn = 20.4261 costmn = 0.1269 #C# -0.003 0.103 -0.275 0.199 -0.036 -0.034 0.000000 0.000000 0.126885 64.933850 79.714626 20.426140 0.000000 0.500000 1 0 Reg at min cost was 0.998 0.052 -0.029 0.073; 0.028 0.016 0.999 0.513; 0.052 -0.999 0.015 -0.164; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg 0.000 -0.001 -0.001 0.002; 0.001 -0.003 0.000 -0.102; -0.001 -0.000 -0.003 0.273; 0.000 0.000 0.000 0.000; Surface RMS Diff (mm) 0.199717 0.396121