$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; Initial costs ---------------- Number of surface hits 304481 WM Intensity0 56.5409 +/- 7.1624 Ctx Intensity0 67.6348 +/- 7.7629 Pct Contrast0 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 Final costs ---------------- Number of surface hits 304481 WM Intensity0 56.5318 +/- 7.1402 Ctx Intensity0 67.5968 +/- 7.7119 Pct Contrast0 17.8233 +/- 12.4061 Cost 0.1343 RelCost 0.1404 Number of iterations 7 Min cost was 0.134270 RelMinCost 0.1331 Number of FunctionCalls 527 OptimizationTime 69.051000 sec Parameters at optimum (transmm, rotdeg) -0.02074 0.16374 0.22181 -0.01581 -0.07641 0.03234 Number of surface hits 304481 WM Intensity 56.5318 +/- 7.1402 Ctx Intensity 67.5968 +/- 7.7119 Pct Contrast 17.8233 +/- 12.4061 Cost at optimum 0.1343 RelCostOptimum 0.1331 nhits= 304481 wmmn= 56.5318 wmstd= 7.1402 constd= 12.4061 ctxmn= 67.5968 ctxstd= 7.7119 conmn = 17.8233 costmn = 0.1343 #C# -0.021 0.164 0.222 -0.016 -0.076 0.032 0.000000 0.000000 0.134270 56.531808 67.596836 17.823343 0.000000 0.500000 1 0 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; 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; Surface RMS Diff (mm) 0.284066 0.379271