$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; Initial costs ---------------- Number of surface hits 258785 WM Intensity0 53.7508 +/- 7.7774 Ctx Intensity0 66.8362 +/- 8.3162 Pct Contrast0 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 Final costs ---------------- Number of surface hits 258785 WM Intensity0 53.7752 +/- 7.8002 Ctx Intensity0 66.8330 +/- 8.3074 Pct Contrast0 21.7681 +/- 13.8176 Cost 0.1025 RelCost 0.1043 Number of iterations 6 Min cost was 0.102489 RelMinCost 0.1010 Number of FunctionCalls 465 OptimizationTime 59.014000 sec Parameters at optimum (transmm, rotdeg) -0.03010 0.09769 -0.17621 0.05157 -0.02253 0.06379 Number of surface hits 258785 WM Intensity 53.7752 +/- 7.8002 Ctx Intensity 66.8330 +/- 8.3074 Pct Contrast 21.7681 +/- 13.8176 Cost at optimum 0.1025 RelCostOptimum 0.1010 nhits= 258785 wmmn= 53.7752 wmstd= 7.8002 constd= 13.8176 ctxmn= 66.8330 ctxstd= 8.3074 conmn = 21.7681 costmn = 0.1025 #C# -0.030 0.098 -0.176 0.052 -0.023 0.064 0.000000 0.000000 0.102489 53.775181 66.832976 21.768091 0.000000 0.500000 1 0 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; 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; Surface RMS Diff (mm) 0.192733 0.239415