$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; Initial costs ---------------- Number of surface hits 306067 WM Intensity0 57.2975 +/- 8.3244 Ctx Intensity0 69.4291 +/- 8.7579 Pct Contrast0 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 Final costs ---------------- Number of surface hits 306067 WM Intensity0 57.2881 +/- 8.2908 Ctx Intensity0 69.4207 +/- 8.7837 Pct Contrast0 19.2072 +/- 13.9822 Cost 0.1574 RelCost 0.1582 Number of iterations 9 Min cost was 0.157440 RelMinCost 0.1550 Number of FunctionCalls 706 OptimizationTime 96.378000 sec Parameters at optimum (transmm, rotdeg) -0.00715 -0.04306 -0.15259 0.11330 0.00929 0.04876 Number of surface hits 306067 WM Intensity 57.2881 +/- 8.2908 Ctx Intensity 69.4207 +/- 8.7837 Pct Contrast 19.2072 +/- 13.9822 Cost at optimum 0.1574 RelCostOptimum 0.1550 nhits= 306067 wmmn= 57.2881 wmstd= 8.2908 constd= 13.9822 ctxmn= 69.4207 ctxstd= 8.7837 conmn = 19.2072 costmn = 0.1574 #C# -0.007 -0.043 -0.153 0.113 0.009 0.049 0.000000 0.000000 0.157440 57.288118 69.420736 19.207172 0.000000 0.500000 1 0 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; 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; Surface RMS Diff (mm) 0.145179 0.292914