Log file is /home/tylers/bbreg_test/init-spm/spm_register.dat.log Thu Mar 17 14:41:09 PDT 2011 setenv SUBJECTS_DIR /home/tylers/bbreg_test cd /home/tylers/bbreg_test/init-spm /home/tylers/apps/freesurfer//bin/bbregister --s hd2155v1 --mov /home/tylers/bbreg_test/T2brain.nii.gz --reg /home/tylers/bbreg_test/init-spm/spm_register.dat --init-spm --t2 $Id: bbregister,v 1.14.2.12 2009/08/07 22:21:00 greve Exp $ Linux perirhinal.ucsd.edu 2.6.9-89.31.1.ELsmp #1 SMP Mon Oct 4 21:41:59 EDT 2010 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/tylers/apps/freesurfer/ mri_convert /home/tylers/bbreg_test/T2brain.nii.gz /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii mri_convert /home/tylers/bbreg_test/T2brain.nii.gz /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from /home/tylers/bbreg_test/T2brain.nii.gz... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 1, 0) k_ras = (0, 0, 1) writing to /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii... spmregister --s hd2155v1 --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --tmp /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister Log file is /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister.log Thu Mar 17 14:41:10 PDT 2011 --s hd2155v1 --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --tmp /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister $Id: spmregister,v 1.21.2.5 2009/04/15 18:10:23 greve Exp $ matlab matlab fmt img UseSPMGetSpace 1 -------------------------------------- /home/tylers/bbreg_test/init-spm mri_convert /home/tylers/bbreg_test/hd2155v1/mri/brainmask.mgz /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img -ic 0 0 0 mri_convert /home/tylers/bbreg_test/hd2155v1/mri/brainmask.mgz /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img -ic 0 0 0 $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from /home/tylers/bbreg_test/hd2155v1/mri/brainmask.mgz... TR=6.50, TE=2.80, TI=600.00, flip angle=687.55 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) writing to /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img... Analyze Output Matrix -1.000 0.000 0.000 129.000; 0.000 0.000 1.000 -129.000; 0.000 -1.000 0.000 129.000; 0.000 0.000 0.000 1.000; -------------------- INFO: set hdr.hist.orient to -1 -------------------------------------- /home/tylers/bbreg_test/init-spm mri_convert /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img -ic 0 0 0 --frame 0 mri_convert /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img -ic 0 0 0 --frame 0 $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii... TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 1, 0) k_ras = (0, 0, 1) keeping frame 0 writing to /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img... Analyze Output Matrix -0.859 0.000 0.000 110.863; 0.000 0.859 0.000 -110.863; 0.000 0.000 4.000 -68.000; 0.000 0.000 0.000 1.000; -------------------- INFO: set hdr.hist.orient to -1 Matlab file is /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/spmregister.15553.m monly = 0; targvol = '/home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img'; srcvol = '/home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img'; errfile = '/home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/spmregister.15553.err'; if(exist('spm_coreg') ~= 2) fprintf('ERROR: cannot find spm_coreg.m. Make sure that the SPM\n'); fprintf(' package is in your matlab path (check ~/matlab/startup)\n'); fp = fopen(errfile,'w'); fprintf(fp,'ERROR: cannot find spm_coreg.m. Make sure that the SPM\n'); fprintf(fp,' package is in your matlab path (check ~/matlab/startup)\n'); fclose(fp); return; quit; end which spm_coreg global defaults spm_defaults % load spm2's default fields fprintf('INFO: Assuming RAS coordinate system\n'); defaults.analyze.flip = 0; %=========================================================================== % coregistration defaults %=========================================================================== defaults.coreg.estimate.cost_fun = 'nmi'; defaults.coreg.estimate.sep = [4 2]; defaults.coreg.estimate.tol = [0.02 0.02 0.02 0.001 0.001 0.001 0.01 0.01 0.01 0.001 0.001 0.001]; defaults.coreg.estimate.fwhm = [7 7]; defaults.coreg.estimate.params = [0 0 0 0 0 0]; defaults.coreg.estimate.graphics = 0; % dont crate ps file %=========================================================================== % coregister files %=========================================================================== disp(sprintf('using %s as the target image',targvol)); disp(sprintf('using %s as the source image',srcvol)); [pth1,nam1,ext1] = fileparts(deblank(targvol)); [pth2,nam2,ext2] = fileparts(deblank(srcvol)); %tmp = spm_get('Files',pth1,[nam1 ext1]); tmp = sprintf('%s/%s%s',pth1,nam1,ext1); VG = spm_vol(tmp); % target image if(isempty(VG)) fprintf('ERROR: loading target %s\n',targvol); fp = fopen(errfile,'a'); fprintf(fp,'ERROR: loading target %s\n',targvol); fclose(fp); return; quit; end % tmp = spm_get('Files',pth2,[nam2 ext2]) tmp = sprintf('%s/%s%s',pth2,nam2,ext2); VF = spm_vol(tmp); % source image if(isempty(VF)) fprintf('ERROR: loading source %s\n',srcvol); fp = fopen(errfile,'a'); fprintf(fp,'ERROR: loading source %s\n',srcvol); fclose(fp); return; quit; end fprintf('\n\nINFO: ignore warnings about scalefactor\n\n'); disp('determining coregistration parameters...') tic; try x = spm_coreg(VG.fname,VF.fname,defaults.coreg.estimate); catch fprintf('ERROR: spm_coreg\n'); fp = fopen(errfile,'a'); fprintf(fp,'ERROR: spm_coreg\n'); fprintf(fp,'%s\n',which('spm_coreg')); fclose(fp); return; quit; end if(isempty(x)) fprintf('ERROR: spm_coreg\n'); if(~monly) fp = fopen(errfile,'a'); fprintf(fp,'ERROR: spm_coreg\n'); fclose(fp); return; quit; end end fprintf('Finished after %g sec\n',toc); fprintf('Parameters '); fprintf('%g ',x); fprintf('\n'); %---------write out the .mat file---see spm_coreg_ui.m line 283 M = inv(spm_matrix(x)); if(1) fprintf('Using spm_get_space\n'); MM = zeros(4,4,1); MM = spm_get_space(deblank(VF.fname)); spm_get_space(deblank(VF.fname), M*MM); fprintf('\n\nINFO: ignore warnings about scalefactor\n\n'); else fprintf('Using MRIread/write instead of spm_get_space\n'); ff = MRIread(deblank(VF.fname)); ff.vox2ras1 = M*ff.vox2ras1; ff.vox2ras0 = vox2ras_1to0(ff.vox2ras1); ff.vox2ras = ff.vox2ras0; MRIwrite(ff,deblank(VF.fname)); end return; if(~monly) quit; end ---------------------------------------------------------------------------- Warning: glibc 2.3.4 - Your version glibc 2.3.6 - MATLAB built using this version ---------------------------------------------------------------------------- Warning: Unable to open display 'iconic'. You will not be able to display graphics on the screen. Warning: No window system found. Java option 'MWT' ignored < M A T L A B (R) > Copyright 1984-2009 The MathWorks, Inc. Version 7.9.0.529 (R2009b) 64-bit (glnxa64) August 12, 2009 To get started, type one of these: helpwin, helpdesk, or demo. For product information, visit www.mathworks.com. neuromag_tb = /opt/neuromag/meg_pd_1.2_mayback >> >> >> >> >> >> >> >> >> /home/tylers/apps/spm8/spm_coreg.m >> >> >> >> >> INFO: Assuming RAS coordinate system >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> using /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img as the target image >> using /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img as the source image >> >> >> >> >> >> >> >> >> >> >> >> >> >> INFO: ignore warnings about scalefactor >> >> determining coregistration parameters... >> >> >> iteration 1... -2.438 0 0 0 0 0 | -1.027 -2.438 17.5 0 0 0 0 | -1.0324 -2.438 17.5 -28.6 0 0 0 | -1.059 -2.438 17.5 -28.6 0.1024 0 0 | -1.0596 -2.438 17.5 -28.6 0.1024 -0.02079 0 | -1.0597 -2.438 17.5 -28.6 0.1024 -0.02079 0 | -1.0597 iteration 2... -2.553 17.5 -28.6 0.1024 -0.02079 0 | -1.0597 -2.553 10.98 -28.6 0.1024 -0.02079 0 | -1.0639 -2.553 10.98 -31.13 0.1024 -0.02079 0 | -1.0647 -2.553 10.98 -31.13 0.2553 -0.02079 0 | -1.0677 -2.553 10.98 -31.13 0.2553 -0.02046 0 | -1.0677 -2.553 10.98 -31.13 0.2553 -0.02046 -0.01005 | -1.0678 -2.656 5.132 -33.4 0.3924 -0.02016 -0.01905 | -1.0717 iteration 3... -3.309 5.132 -33.4 0.3924 -0.02016 -0.01905 | -1.0719 -3.305 5.33 -33.32 0.3878 -0.02017 -0.01875 | -1.0719 -3.305 5.33 -36.76 0.3878 -0.02017 -0.01875 | -1.0749 -3.305 5.33 -36.76 0.4662 -0.02017 -0.01875 | -1.0774 -3.305 5.33 -36.76 0.4662 -0.06926 -0.01875 | -1.0779 -3.305 5.33 -36.76 0.4662 -0.06926 -0.07561 | -1.0794 iteration 4... -4.795 5.33 -36.76 0.4662 -0.06926 -0.07561 | -1.081 -4.825 3.626 -37.42 0.5061 -0.06917 -0.07823 | -1.082 -4.825 3.626 -39.64 0.5061 -0.06917 -0.07823 | -1.0842 -4.825 3.626 -39.64 0.5214 -0.06917 -0.07823 | -1.0844 -4.825 3.626 -39.64 0.5214 -0.0558 -0.07823 | -1.0845 -4.825 3.626 -39.64 0.5214 -0.0558 -0.1211 | -1.0871 iteration 5... -6.127 3.626 -39.64 0.5214 -0.0558 -0.1211 | -1.09 -6.119 4.087 -39.47 0.5106 -0.05583 -0.1204 | -1.0902 -6.119 4.087 -40.24 0.5106 -0.05583 -0.1204 | -1.0908 -6.119 4.087 -40.24 0.5106 -0.05583 -0.1204 | -1.0908 -6.119 4.087 -40.24 0.5106 -0.0461 -0.1204 | -1.0911 -6.119 4.087 -40.24 0.5106 -0.0461 -0.1432 | -1.0933 -6.942 4.381 -40.62 0.5037 -0.03993 -0.1573 | -1.0953 iteration 6... -6.948 4.383 -40.62 0.5037 -0.03989 -0.1574 | -1.0954 -6.951 4.195 -40.7 0.5081 -0.03988 -0.1576 | -1.0955 -6.951 4.195 -40.42 0.5081 -0.03988 -0.1576 | -1.0956 -6.951 4.195 -40.42 0.5051 -0.03988 -0.1576 | -1.0957 -6.951 4.195 -40.42 0.5051 -0.03988 -0.1576 | -1.0957 -6.951 4.195 -40.42 0.5051 -0.03988 -0.1547 | -1.0958 iteration 7... -7.113 4.252 -40.49 0.5038 -0.03866 -0.1575 | -1.0959 -7.116 4.067 -40.56 0.5081 -0.03865 -0.1578 | -1.096 -7.116 4.067 -40.4 0.5081 -0.03865 -0.1578 | -1.0961 -7.116 4.067 -40.4 0.5064 -0.03865 -0.1578 | -1.0961 -7.116 4.067 -40.4 0.5064 -0.03865 -0.1578 | -1.0961 -7.116 4.067 -40.4 0.5064 -0.03865 -0.1567 | -1.0961 -7.281 3.939 -40.39 0.5076 -0.03743 -0.1586 | -1.0962 iteration 8... -7.305 3.92 -40.39 0.5077 -0.03726 -0.1589 | -1.0962 -7.304 3.954 -40.37 0.5069 -0.03726 -0.1588 | -1.0962 -7.304 3.954 -40.32 0.5069 -0.03726 -0.1588 | -1.0962 -7.304 3.954 -40.32 0.5078 -0.03726 -0.1588 | -1.0962 -7.304 3.954 -40.32 0.5078 -0.03644 -0.1588 | -1.0962 -7.304 3.954 -40.32 0.5078 -0.03644 -0.159 | -1.0962 iteration 9... -7.344 3.923 -40.31 0.5081 -0.03614 -0.1595 | -1.0962 -7.343 3.996 -40.28 0.5064 -0.03614 -0.1594 | -1.0962 -7.343 3.996 -40.31 0.5064 -0.03614 -0.1594 | -1.0962 -7.343 3.996 -40.31 0.5074 -0.03614 -0.1594 | -1.0962 -7.343 3.996 -40.31 0.5074 -0.03614 -0.1594 | -1.0962 -7.343 3.996 -40.31 0.5074 -0.03614 -0.1594 | -1.0962 iteration 10... -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 -7.343 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0962 iteration 1... -7.376 3.997 -40.31 0.5074 -0.03615 -0.1594 | -1.0957 -7.376 4.004 -40.31 0.5074 -0.03615 -0.1594 | -1.0957 -7.376 4.004 -40.31 0.5074 -0.03615 -0.1594 | -1.0957 -7.376 4.004 -40.31 0.5074 -0.03615 -0.1594 | -1.0957 -7.376 4.004 -40.31 0.5074 -0.0353 -0.1594 | -1.0957 -7.376 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 iteration 2... -7.387 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 -7.387 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 -7.387 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 -7.387 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 -7.387 4.004 -40.31 0.5074 -0.0353 -0.1595 | -1.0957 -7.387 4.004 -40.31 0.5074 -0.0353 -0.1596 | -1.0957 >> >> Finished after 50.7395 sec >> >> Parameters >> -7.38658 4.00424 -40.3123 0.507414 -0.0352956 -0.159611 >> >> >> >> >> >> >> Using spm_get_space INFO: ignore warnings about scalefactor >> >> >> -------------------------------------------------- /home/tylers/bbreg_test/init-spm tkregister2_cmdl --s hd2155v1 --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img --regheader --noedit --reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --targ /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img --mgz tkregister_tcl /home/tylers/apps/freesurfer//lib/tcl/tkregister2.tcl target volume /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img movable volume /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img reg file /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat LoadVol 0 ZeroCRAS 0 $Id: tkregister2.c,v 1.86.2.12 2009/03/19 22:04:20 greve Exp $ Diagnostic Level -1 INFO: loading target /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/refvol.spmregister.img 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/tylers/bbreg_test/init-spm/tmp.bbregister.15515/spmregister/movvol.spmregister.img Tmov: -------------------- -0.859 0.000 0.000 110.003; 0.000 0.000 4.000 -64.000; 0.000 -0.859 0.000 110.003; 0.000 0.000 0.000 1.000; mkheaderreg = 1, float2int = 0 Computing reg from header (and possibly input matrix) ---- Input registration matrix (computed) -------- -0.987 0.159 0.035 7.387; -0.047 -0.485 0.873 -40.312; -0.156 -0.860 -0.486 -4.004; 0.000 0.000 0.000 1.000; --------------------------------------- ---- Input registration matrix -------- -0.987 0.159 0.035 7.387; -0.047 -0.485 0.873 -40.312; -0.156 -0.860 -0.486 -4.004; 0.000 0.000 0.000 1.000; Determinant -1 subject = hd2155v1 RegMat --------------------------- -0.987 0.159 0.035 7.387; -0.047 -0.485 0.873 -40.312; -0.156 -0.860 -0.486 -4.004; 0.000 0.000 0.000 1.000; register: file /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat written Started at Thu Mar 17 14:41:10 PDT 2011 Ended at Thu Mar 17 14:42:13 PDT 2011 spmregister Done To check results, run: tkregister2 --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --surf orig mri_segreg --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --init-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --out-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --gm-proj-frac 0.5 --gm-gt-wm 0.5 $Id: mri_segreg.c,v 1.70.2.7 2009/07/29 22:52:38 nicks Exp $ setenv SUBJECTS_DIR /home/tylers/bbreg_test cd /home/tylers/bbreg_test/init-spm mri_segreg --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --init-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat --out-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --gm-proj-frac 0.5 --gm-gt-wm 0.5 sysname Linux hostname perirhinal.ucsd.edu machine x86_64 user tylers movvol /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii regfile /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.init.dat subject hd2155v1 dof 6 outregfile /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/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 DoPowell 1 TolPowell 0.000100 nMaxItersPowell 36 n1dmin 3 Profile 0 Gdiag_no -1 AddNoise 0 (0) SynthSeed 1300573592 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg -0.987 0.159 0.035 7.387; -0.047 -0.485 0.873 -40.312; -0.156 -0.860 -0.486 -4.004; 0.000 0.000 0.000 1.000; Loading mov Loading lh.white surf Loading lh.thickness for GM GM Proj: 1 0.500000 2.000000 WM Proj: 0 0.500000 2.000000 Projecting LH Surfs Projecting RH Surfs Loading rh.white surf Loading rh.thickness No such file or directory mri_segreg: could not open label file /home/tylers/bbreg_test/hd2155v1/label/lh.cortex.label Projecting RH Surfs lh.cortex.label /home/tylers/bbreg_test/hd2155v1/label/lh.cortex.label Invalid argument No such file or directory mri_segreg: could not open label file /home/tylers/bbreg_test/hd2155v1/label/rh.cortex.label Warning cannot find lh.cortex.label ... continuing rh.cortex.label /home/tylers/bbreg_test/hd2155v1/label/rh.cortex.label No such file or directory Warning cannot find rh.cortex.label ... continuing Computing relative cost 0 -25.0 -25.0 -25.0 0.974516 1 -25.0 -25.0 25.0 1.009204 2 -25.0 25.0 -25.0 1.017470 3 -25.0 25.0 25.0 0.964696 4 25.0 -25.0 -25.0 0.982113 5 25.0 -25.0 25.0 0.980456 6 25.0 25.0 -25.0 0.979870 7 25.0 25.0 25.0 1.022484 REL: 8 0.927149 7.930809 0.991351 rel = 0.935237 Initial costs ---------------- Number of surface hits 0 WM Intensity 0.0000 +/- 0.0000 Ctx Intensity 0.0000 +/- 0.0000 Pct Contrast 0.0000 +/- 0.0000 Cost 0.0000 RelCost 0.9352 ------------------------------------ Bruce force preopt -4 4 4, n = 729 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.9392 0.9392 0.0 3 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 0.8603 0.8603 0.0 84 -4.0000 0.0000 -4.0000 -4.0000 0.0000 -4.0000 0.8473 0.8473 0.0 Brute Force -------------------------- Min cost was 0.847277 Number of iterations 729 Search time 5.712000 sec Parameters at best (transmm, rotdeg) -4.000 0.000 -4.000 -4.000 0.000 -4.000 -------------------------------------------- Starting Powell Minimization Init Powel Params dof = 6 0 -4 1 0 2 -4 3 -4 4 0 5 -4 6 -3.618 0.000 -4.000 -4.000 0.000 -4.000 0.8454177943 7 -3.601 0.000 -4.000 -4.000 0.000 -4.000 0.8453585006 12 -3.601 0.000 -4.000 -4.000 0.000 -4.000 0.8453584432 14 -3.601 1.000 -4.000 -4.000 0.000 -4.000 0.8414231069 17 -3.601 1.618 -4.000 -4.000 0.000 -4.000 0.8390111930 21 -3.601 1.525 -4.000 -4.000 0.000 -4.000 0.8383705623 23 -3.601 1.541 -4.000 -4.000 0.000 -4.000 0.8383247569 26 -3.601 1.547 -4.000 -4.000 0.000 -4.000 0.8383205022 36 -3.601 1.547 -3.894 -4.000 0.000 -4.000 0.8366883323 38 -3.601 1.547 -3.926 -4.000 0.000 -4.000 0.8364877801 40 -3.601 1.547 -3.916 -4.000 0.000 -4.000 0.8364373481 43 -3.601 1.547 -3.916 -4.000 0.000 -4.000 0.8364373462 52 -3.601 1.547 -3.916 -3.973 0.000 -4.000 0.8363001162 54 -3.601 1.547 -3.916 -3.975 0.000 -4.000 0.8362976744 56 -3.601 1.547 -3.916 -3.979 0.000 -4.000 0.8362959807 57 -3.601 1.547 -3.916 -3.980 0.000 -4.000 0.8362956041 60 -3.601 1.547 -3.916 -3.981 0.000 -4.000 0.8362955343 63 -3.601 1.547 -3.916 -3.980 0.000 -4.000 0.8362953675 72 -3.601 1.547 -3.916 -3.980 -0.618 -4.000 0.8350040922 74 -3.601 1.547 -3.916 -3.980 -0.338 -4.000 0.8311156244 77 -3.601 1.547 -3.916 -3.980 -0.357 -4.000 0.8310894858 78 -3.601 1.547 -3.916 -3.980 -0.351 -4.000 0.8310719025 88 -3.601 1.547 -3.916 -3.980 -0.351 -3.935 0.8308756132 89 -3.601 1.547 -3.916 -3.980 -0.351 -3.937 0.8308720606 90 -3.601 1.547 -3.916 -3.980 -0.351 -3.948 0.8308608578 93 -3.601 1.547 -3.916 -3.980 -0.351 -3.949 0.8308608306 94 -3.601 1.547 -3.916 -3.980 -0.351 -3.949 0.8308607299 95 -3.601 1.547 -3.916 -3.980 -0.351 -3.949 0.8308606696 106 -3.601 1.547 -3.916 -3.980 -0.351 -3.949 0.8308571978 109 -3.584 1.547 -3.916 -3.980 -0.351 -3.949 0.8307595886 111 -3.583 1.547 -3.916 -3.980 -0.351 -3.949 0.8307594820 119 -3.583 1.547 -3.916 -3.980 -0.351 -3.949 0.8307594801 127 -3.583 1.393 -3.916 -3.980 -0.351 -3.949 0.8292098423 128 -3.583 1.360 -3.916 -3.980 -0.351 -3.949 0.8290513263 131 -3.583 1.355 -3.916 -3.980 -0.351 -3.949 0.8290503673 132 -3.583 1.356 -3.916 -3.980 -0.351 -3.949 0.8290500509 133 -3.583 1.356 -3.916 -3.980 -0.351 -3.949 0.8290499976 134 -3.583 1.357 -3.916 -3.980 -0.351 -3.949 0.8290499969 145 -3.583 1.357 -3.954 -3.980 -0.351 -3.949 0.8283802208 146 -3.583 1.357 -3.956 -3.980 -0.351 -3.949 0.8283722132 149 -3.583 1.357 -3.956 -3.980 -0.351 -3.949 0.8283720000 162 -3.583 1.357 -3.956 -4.001 -0.351 -3.949 0.8283308703 163 -3.583 1.357 -3.956 -3.999 -0.351 -3.949 0.8283282256 164 -3.583 1.357 -3.956 -3.996 -0.351 -3.949 0.8283265174 167 -3.583 1.357 -3.956 -3.996 -0.351 -3.949 0.8283264796 168 -3.583 1.357 -3.956 -3.996 -0.351 -3.949 0.8283263271 169 -3.583 1.357 -3.956 -3.995 -0.351 -3.949 0.8283262646 170 -3.583 1.357 -3.956 -3.996 -0.351 -3.949 0.8283262289 182 -3.583 1.357 -3.956 -3.996 -0.356 -3.949 0.8283121374 183 -3.583 1.357 -3.956 -3.996 -0.357 -3.949 0.8283116254 184 -3.583 1.357 -3.956 -3.996 -0.357 -3.949 0.8283114884 185 -3.583 1.357 -3.956 -3.996 -0.357 -3.949 0.8283114619 190 -3.583 1.357 -3.956 -3.996 -0.357 -3.949 0.8283113721 202 -3.583 1.357 -3.956 -3.996 -0.357 -3.911 0.8283106047 203 -3.583 1.357 -3.956 -3.996 -0.357 -3.930 0.8282568900 204 -3.583 1.357 -3.956 -3.996 -0.357 -3.930 0.8282567099 207 -3.583 1.357 -3.956 -3.996 -0.357 -3.931 0.8282564344 208 -3.583 1.357 -3.956 -3.996 -0.357 -3.931 0.8282561503 223 -3.555 1.357 -3.956 -3.996 -0.357 -3.931 0.8280649552 225 -3.559 1.357 -3.956 -3.996 -0.357 -3.931 0.8280603391 227 -3.559 1.357 -3.956 -3.996 -0.357 -3.931 0.8280603059 229 -3.559 1.357 -3.956 -3.996 -0.357 -3.931 0.8280603043 230 -3.559 1.357 -3.956 -3.996 -0.357 -3.931 0.8280602679 231 -3.559 1.357 -3.956 -3.996 -0.357 -3.931 0.8280602551 239 -3.559 1.352 -3.956 -3.996 -0.357 -3.931 0.8280550176 241 -3.559 1.350 -3.956 -3.996 -0.357 -3.931 0.8280547536 242 -3.559 1.350 -3.956 -3.996 -0.357 -3.931 0.8280547459 261 -3.559 1.350 -3.956 -3.996 -0.357 -3.931 0.8280547082 290 -3.559 1.350 -3.956 -3.995 -0.357 -3.931 0.8280544581 291 -3.559 1.350 -3.956 -3.995 -0.357 -3.931 0.8280543731 321 -3.559 1.350 -3.956 -3.995 -0.357 -3.931 0.8280543708 348 -3.559 1.350 -3.956 -3.995 -0.357 -3.930 0.8280543092 351 -3.559 1.350 -3.956 -3.995 -0.357 -3.929 0.8280542942 353 -3.559 1.350 -3.956 -3.995 -0.357 -3.929 0.8280542378 418 -3.559 1.350 -3.956 -3.995 -0.357 -3.929 0.8280542361 422 -3.559 1.350 -3.956 -3.995 -0.357 -3.929 0.8280542138 441 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280541646 443 -3.559 1.352 -3.956 -3.995 -0.357 -3.929 0.8280540910 445 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280540048 469 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280539633 471 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280539535 473 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280539526 476 -3.559 1.351 -3.956 -3.995 -0.357 -3.929 0.8280539410 502 -3.559 1.351 -3.956 -3.994 -0.357 -3.929 0.8280538701 528 -3.559 1.351 -3.956 -3.994 -0.357 -3.929 0.8280538354 538 -3.559 1.351 -3.956 -3.994 -0.357 -3.929 0.8280537197 Powell done niters = 3 Computing relative cost 0 -25.0 -25.0 -25.0 1.007573 1 -25.0 -25.0 25.0 1.033199 2 -25.0 25.0 -25.0 1.031882 3 -25.0 25.0 25.0 1.052570 4 25.0 -25.0 -25.0 1.027418 5 25.0 -25.0 25.0 0.980378 6 25.0 25.0 -25.0 1.032628 7 25.0 25.0 25.0 0.953229 REL: 8 0.828054 8.118877 1.014860 rel = 0.815929 Number of iterations 3 Min cost was 0.828054 Number of FunctionCalls 576 TolPowell 0.000100 nMaxItersPowell 36 OptimizationTime 5.060000 sec Parameters at optimum (transmm, rotdeg) -3.55892 1.35144 -3.95570 -3.99449 -0.35726 -3.92890 Costs at optimum 2197 860.0900 280.6622 30.8127 887.4424 308.4643 2.3825 0.8281 Reg at min cost was -0.987 0.126 0.096 1.043; 0.010 -0.553 0.833 -39.553; -0.158 -0.823 -0.545 -5.096; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat Original Reg -0.987 0.159 0.035 7.387; -0.047 -0.485 0.873 -40.312; -0.156 -0.860 -0.486 -4.004; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg 0.001 0.032 -0.061 6.344; -0.057 0.069 0.041 -0.759; 0.003 -0.037 0.059 1.092; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 6.570983 Computing change in rh position Surface RMS Diff (mm) 7.040350 11.148131 mri_segreg done mri_segreg --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --init-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat --out-reg /home/tylers/bbreg_test/init-spm/spm_register.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/tylers/bbreg_test/init-spm/spm_register.dat.mincost --dof 6 --cur-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5 $Id: mri_segreg.c,v 1.70.2.7 2009/07/29 22:52:38 nicks Exp $ setenv SUBJECTS_DIR /home/tylers/bbreg_test cd /home/tylers/bbreg_test/init-spm mri_segreg --mov /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii --init-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat --out-reg /home/tylers/bbreg_test/init-spm/spm_register.dat --brute -0.1 0.1 0.1 --interp trilinear --wm-proj-abs 2 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/tylers/bbreg_test/init-spm/spm_register.dat.mincost --dof 6 --cur-reg /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/reg.curopt.dat --gm-proj-frac 0.5 --nsub 1 --gm-gt-wm 0.5 sysname Linux hostname perirhinal.ucsd.edu machine x86_64 user tylers movvol /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/template.nii regfile /home/tylers/bbreg_test/init-spm/tmp.bbregister.15515/bbr.pass1.dat subject hd2155v1 dof 6 outregfile /home/tylers/bbreg_test/init-spm/spm_register.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 DoPowell 1 TolPowell 0.000000 nMaxItersPowell 36 n1dmin 3 Profile 0 Gdiag_no -1 AddNoise 0 (0) SynthSeed 1301128600 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg -0.987 0.126 0.096 1.043; 0.010 -0.553 0.833 -39.553; -0.158 -0.823 -0.545 -5.096; 0.000 0.000 0.000 1.000; Loading mov Loading lh.white surf Loading lh.thickness for GM GM Proj: 1 0.500000 2.000000 WM Proj: 0 0.500000 2.000000 Projecting LH Surfs Projecting RH Surfs Loading rh.white surf Loading rh.thickness No such file or directory mri_segreg: could not open label file /home/tylers/bbreg_test/hd2155v1/label/lh.cortex.label Projecting RH Surfs lh.cortex.label /home/tylers/bbreg_test/hd2155v1/label/lh.cortex.label Invalid argument No such file or directory mri_segreg: could not open label file /home/tylers/bbreg_test/hd2155v1/label/rh.cortex.label Warning cannot find lh.cortex.label ... continuing rh.cortex.label /home/tylers/bbreg_test/hd2155v1/label/rh.cortex.label No such file or directory Warning cannot find rh.cortex.label ... continuing Computing relative cost 0 -25.0 -25.0 -25.0 1.001229 1 -25.0 -25.0 25.0 1.016166 2 -25.0 25.0 -25.0 1.027481 3 -25.0 25.0 25.0 1.020445 4 25.0 -25.0 -25.0 1.021638 5 25.0 -25.0 25.0 1.006876 6 25.0 25.0 -25.0 1.024075 7 25.0 25.0 25.0 1.000453 REL: 8 0.896731 8.118363 1.014795 rel = 0.883657 Initial costs ---------------- Number of surface hits 0 WM Intensity 0.0000 +/- 0.0000 Ctx Intensity 0.0000 +/- 0.0000 Pct Contrast 0.0000 +/- 0.0000 Cost 0.0000 RelCost 0.8837 ------------------------------------ Bruce force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.8267 0.8267 0.0 1 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.8265 0.8265 0.0 5 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.1000 0.8257 0.8257 0.0 162 -0.1000 0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.8248 0.8248 0.0 244 0.0000 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.8245 0.8245 0.0 Brute Force -------------------------- Min cost was 0.824534 Number of iterations 729 Search time 6.890000 sec Parameters at best (transmm, rotdeg) 0.000 -0.100 -0.100 -0.100 -0.100 0.000 -------------------------------------------- Starting Powell Minimization Init Powel Params dof = 6 0 0 1 -0.1 2 -0.1 3 -0.1 4 -0.1 5 0 7 -0.267 -0.100 -0.100 -0.100 -0.100 0.000 0.8954008973 8 -0.265 -0.100 -0.100 -0.100 -0.100 0.000 0.8954003870 9 -0.254 -0.100 -0.100 -0.100 -0.100 0.000 0.8953889460 12 -0.240 -0.100 -0.100 -0.100 -0.100 0.000 0.8953785063 17 -0.241 -0.100 -0.100 -0.100 -0.100 0.000 0.8953779680 18 -0.241 -0.100 -0.100 -0.100 -0.100 0.000 0.8953773836 19 -0.242 -0.100 -0.100 -0.100 -0.100 0.000 0.8953770508 24 -0.242 -1.718 -0.100 -0.100 -0.100 0.000 0.8937898048 32 -0.242 -1.757 -0.100 -0.100 -0.100 0.000 0.8937825186 34 -0.242 -1.745 -0.100 -0.100 -0.100 0.000 0.8937803817 35 -0.242 -1.743 -0.100 -0.100 -0.100 0.000 0.8937802549 37 -0.242 -1.740 -0.100 -0.100 -0.100 0.000 0.8937800995 38 -0.242 -1.738 -0.100 -0.100 -0.100 0.000 0.8937800831 45 -0.242 -1.738 0.282 -0.100 -0.100 0.000 0.8930477740 48 -0.242 -1.738 0.276 -0.100 -0.100 0.000 0.8930454110 49 -0.242 -1.738 0.270 -0.100 -0.100 0.000 0.8930442943 56 -0.242 -1.738 0.269 0.900 -0.100 0.000 0.8892876499 57 -0.242 -1.738 0.269 2.518 -0.100 0.000 0.8831310492 63 -0.242 -1.738 0.269 2.502 -0.100 0.000 0.8831048349 65 -0.242 -1.738 0.269 2.414 -0.100 0.000 0.8830423967 68 -0.242 -1.738 0.269 2.399 -0.100 0.000 0.8830403972 69 -0.242 -1.738 0.269 2.404 -0.100 0.000 0.8830395833 73 -0.242 -1.738 0.269 2.406 0.900 0.000 0.8796435568 77 -0.242 -1.738 0.269 2.406 0.518 0.000 0.8794771196 78 -0.242 -1.738 0.269 2.406 0.655 0.000 0.8794562258 80 -0.242 -1.738 0.269 2.406 0.749 0.000 0.8794076287 84 -0.242 -1.738 0.269 2.406 0.753 0.000 0.8794070424 85 -0.242 -1.738 0.269 2.406 0.754 0.000 0.8794070038 90 -0.242 -1.738 0.269 2.406 0.754 -1.618 0.8661261515 91 -0.242 -1.738 0.269 2.406 0.754 -3.985 0.8584973059 96 -0.242 -1.738 0.269 2.406 0.754 -3.609 0.8580280459 97 -0.242 -1.738 0.269 2.406 0.754 -3.579 0.8579994745 99 -0.242 -1.738 0.269 2.406 0.754 -3.489 0.8579497417 100 -0.242 -1.738 0.269 2.406 0.754 -3.486 0.8579489882 101 -0.242 -1.738 0.269 2.406 0.754 -3.456 0.8579428926 104 -0.242 -1.738 0.269 2.406 0.754 -3.446 0.8579428706 106 -0.242 -1.738 0.269 2.406 0.754 -3.449 0.8579425884 109 0.758 -1.738 0.269 2.406 0.754 -3.449 0.8513790817 114 0.688 -1.738 0.269 2.406 0.754 -3.449 0.8513391178 115 0.679 -1.738 0.269 2.406 0.754 -3.449 0.8513240963 116 0.563 -1.738 0.269 2.406 0.754 -3.449 0.8513020704 117 0.613 -1.738 0.269 2.406 0.754 -3.449 0.8512479813 121 0.612 -1.738 0.269 2.406 0.754 -3.449 0.8512466368 122 0.610 -1.738 0.269 2.406 0.754 -3.449 0.8512447846 130 0.610 -2.035 0.269 2.406 0.754 -3.449 0.8507993662 132 0.610 -2.038 0.269 2.406 0.754 -3.449 0.8507940157 134 0.610 -2.084 0.269 2.406 0.754 -3.449 0.8507927530 135 0.610 -2.062 0.269 2.406 0.754 -3.449 0.8507863222 138 0.610 -2.059 0.269 2.406 0.754 -3.449 0.8507852397 139 0.610 -2.056 0.269 2.406 0.754 -3.449 0.8507842562 140 0.610 -2.055 0.269 2.406 0.754 -3.449 0.8507835622 141 0.610 -2.054 0.269 2.406 0.754 -3.449 0.8507830977 145 0.610 -2.054 1.269 2.406 0.754 -3.449 0.8442244611 148 0.610 -2.054 1.887 2.406 0.754 -3.449 0.8435451182 150 0.610 -2.054 1.746 2.406 0.754 -3.449 0.8432804857 151 0.610 -2.054 1.666 2.406 0.754 -3.449 0.8429529090 153 0.610 -2.054 1.608 2.406 0.754 -3.449 0.8428365200 155 0.610 -2.054 1.617 2.406 0.754 -3.449 0.8428346885 157 0.610 -2.054 1.614 2.406 0.754 -3.449 0.8428338974 161 0.610 -2.054 1.614 3.406 0.754 -3.449 0.8390924486 166 0.610 -2.054 1.614 3.592 0.754 -3.449 0.8389185398 167 0.610 -2.054 1.614 3.627 0.754 -3.449 0.8388802531 168 0.610 -2.054 1.614 3.779 0.754 -3.449 0.8386165931 171 0.610 -2.054 1.614 3.783 0.754 -3.449 0.8386165264 173 0.610 -2.054 1.614 3.781 0.754 -3.449 0.8386164887 175 0.610 -2.054 1.614 3.781 1.754 -3.449 0.8332807428 178 0.610 -2.054 1.614 3.781 2.372 -3.449 0.8329410776 180 0.610 -2.054 1.614 3.781 2.112 -3.449 0.8328207832 181 0.610 -2.054 1.614 3.781 2.160 -3.449 0.8327795235 190 0.610 -2.054 1.614 3.781 2.161 -5.068 0.8296843513 191 0.610 -2.054 1.614 3.781 2.161 -4.552 0.8286281239 196 0.610 -2.054 1.614 3.781 2.161 -4.391 0.8285524867 198 0.610 -2.054 1.614 3.781 2.161 -4.452 0.8285035148 199 0.610 -2.054 1.614 3.781 2.161 -4.453 0.8285030300 202 0.610 -2.054 1.614 3.781 2.161 -4.455 0.8285020910 204 1.463 -2.370 2.958 5.156 3.569 -5.461 0.8263006674 226 0.886 -1.791 1.614 3.781 2.161 -4.455 0.8262998093 227 0.886 -1.800 1.614 3.781 2.161 -4.455 0.8262969677 228 0.886 -1.814 1.614 3.781 2.161 -4.455 0.8262928539 231 0.886 -1.828 1.614 3.781 2.161 -4.455 0.8262902558 237 0.886 -1.827 1.614 3.781 2.161 -4.455 0.8262902100 238 0.886 -1.827 1.614 3.781 2.161 -4.455 0.8262901795 241 0.886 -1.827 2.614 3.781 2.161 -4.455 0.8235976981 242 0.886 -1.827 4.232 3.781 2.161 -4.455 0.8223710127 254 0.886 -1.827 4.232 4.781 2.161 -4.455 0.8206599761 261 0.886 -1.827 4.232 4.887 2.161 -4.455 0.8205918619 262 0.886 -1.827 4.232 4.858 2.161 -4.455 0.8205910222 263 0.886 -1.827 4.232 4.871 2.161 -4.455 0.8205882521 264 0.886 -1.827 4.232 4.872 2.161 -4.455 0.8205882380 267 0.886 -1.827 4.232 4.872 3.161 -4.455 0.8101230186 268 0.886 -1.827 4.232 4.872 4.779 -4.455 0.7958575217 269 0.886 -1.827 4.232 4.872 10.970 -4.455 0.7282625629 283 0.886 -1.827 4.232 4.872 10.970 -6.073 0.6891156296 288 0.886 -1.827 4.232 4.872 10.970 -8.667 0.6539925501 289 0.886 -1.827 4.232 4.872 10.970 -8.663 0.6539876930 291 0.886 -1.827 4.232 4.872 10.970 -8.625 0.6539577521 293 0.886 -1.827 4.232 4.872 10.970 -8.613 0.6539552599 301 0.268 -1.827 4.232 4.872 10.970 -8.613 0.6451240060 303 0.109 -1.827 4.232 4.872 10.970 -8.613 0.6450927284 304 0.170 -1.827 4.232 4.872 10.970 -8.613 0.6449766315 308 0.161 -1.827 4.232 4.872 10.970 -8.613 0.6449721816 310 0.160 -1.827 4.232 4.872 10.970 -8.613 0.6449720388 313 0.160 -0.827 4.232 4.872 10.970 -8.613 0.6433532946 317 0.160 -1.209 4.232 4.872 10.970 -8.613 0.6406277508 318 0.160 -1.367 4.232 4.872 10.970 -8.613 0.6403606842 320 0.160 -1.338 4.232 4.872 10.970 -8.613 0.6403593909 322 0.160 -1.352 4.232 4.872 10.970 -8.613 0.6403537629 323 0.160 -1.352 4.232 4.872 10.970 -8.613 0.6403537429 324 0.160 -1.353 4.232 4.872 10.970 -8.613 0.6403537305 333 0.160 -1.353 3.614 4.872 10.970 -8.613 0.6398351367 335 0.160 -1.353 3.885 4.872 10.970 -8.613 0.6393532161 337 0.160 -1.353 4.017 4.872 10.970 -8.613 0.6391930403 340 0.160 -1.353 4.015 4.872 10.970 -8.613 0.6391930331 341 0.160 -1.353 4.016 4.872 10.970 -8.613 0.6391929639 349 0.160 -1.353 4.016 5.254 10.970 -8.613 0.6390404712 350 0.160 -1.353 4.016 5.094 10.970 -8.613 0.6389726504 353 0.160 -1.353 4.016 5.073 10.970 -8.613 0.6389657518 354 0.160 -1.353 4.016 5.070 10.970 -8.613 0.6389656015 361 0.160 -1.353 4.016 5.071 11.970 -8.613 0.6313126358 364 0.160 -1.353 4.016 5.071 12.589 -8.613 0.6306301670 368 0.160 -1.353 4.016 5.071 12.597 -8.613 0.6306210470 369 0.160 -1.353 4.016 5.071 12.630 -8.613 0.6306021326 372 0.160 -1.353 4.016 5.071 12.624 -8.613 0.6306015168 373 0.160 -1.353 4.016 5.071 12.625 -8.613 0.6306012469 381 0.160 -1.353 4.016 5.071 12.625 -8.774 0.6301925771 382 0.160 -1.353 4.016 5.071 12.625 -8.813 0.6301582101 384 0.160 -1.353 4.016 5.071 12.625 -8.822 0.6301563444 385 0.160 -1.353 4.016 5.071 12.625 -8.823 0.6301563008 386 0.160 -1.353 4.016 5.071 12.625 -8.826 0.6301561895 390 0.160 -1.353 4.016 5.071 12.625 -8.826 0.6301561649 398 -0.043 -1.353 4.016 5.071 12.625 -8.826 0.6295937668 400 -0.033 -1.353 4.016 5.071 12.625 -8.826 0.6295936437 401 -0.037 -1.353 4.016 5.071 12.625 -8.826 0.6295933040 402 -0.038 -1.353 4.016 5.071 12.625 -8.826 0.6295933029 415 -0.039 -1.268 4.016 5.071 12.625 -8.826 0.6295194430 416 -0.039 -1.280 4.016 5.071 12.625 -8.826 0.6295057267 417 -0.039 -1.294 4.016 5.071 12.625 -8.826 0.6294981018 419 -0.039 -1.296 4.016 5.071 12.625 -8.826 0.6294979354 420 -0.039 -1.297 4.016 5.071 12.625 -8.826 0.6294979209 430 -0.039 -1.297 4.398 5.071 12.625 -8.826 0.6275224415 432 -0.039 -1.297 4.374 5.071 12.625 -8.826 0.6274891774 434 -0.039 -1.297 4.350 5.071 12.625 -8.826 0.6274838710 436 -0.039 -1.297 4.348 5.071 12.625 -8.826 0.6274836696 439 -0.039 -1.297 4.346 5.071 12.625 -8.826 0.6274835074 448 -0.039 -1.297 4.345 4.843 12.625 -8.826 0.6271642876 449 -0.039 -1.297 4.345 4.859 12.625 -8.826 0.6271615955 464 -0.039 -1.297 4.345 4.858 12.548 -8.826 0.6271136337 465 -0.039 -1.297 4.345 4.858 12.555 -8.826 0.6271035746 466 -0.039 -1.297 4.345 4.858 12.577 -8.826 0.6270878908 468 -0.039 -1.297 4.345 4.858 12.574 -8.826 0.6270874565 470 -0.039 -1.297 4.345 4.858 12.574 -8.826 0.6270874120 472 -0.039 -1.297 4.345 4.858 12.574 -8.826 0.6270873698 480 -0.039 -1.297 4.345 4.858 12.574 -8.651 0.6268145211 482 -0.039 -1.297 4.345 4.858 12.574 -8.657 0.6268136979 486 -0.039 -1.297 4.345 4.858 12.574 -8.657 0.6268135977 487 -0.039 -1.297 4.345 4.858 12.574 -8.667 0.6268132610 491 -0.039 -1.297 4.345 4.858 12.574 -8.666 0.6268132397 503 -0.064 -1.297 4.345 4.858 12.574 -8.666 0.6267702569 504 -0.093 -1.297 4.345 4.858 12.574 -8.666 0.6267554063 505 -0.090 -1.297 4.345 4.858 12.574 -8.666 0.6267544203 506 -0.086 -1.297 4.345 4.858 12.574 -8.666 0.6267538980 519 -0.086 -1.232 4.345 4.858 12.574 -8.666 0.6267417363 520 -0.086 -1.257 4.345 4.858 12.574 -8.666 0.6267181826 521 -0.086 -1.261 4.345 4.858 12.574 -8.666 0.6267179584 522 -0.086 -1.260 4.345 4.858 12.574 -8.666 0.6267179397 523 -0.086 -1.260 4.345 4.858 12.574 -8.666 0.6267179392 524 -0.086 -1.260 4.345 4.858 12.574 -8.666 0.6267179364 539 -0.086 -1.259 4.339 4.858 12.574 -8.666 0.6267121214 540 -0.086 -1.259 4.331 4.858 12.574 -8.666 0.6267108377 541 -0.086 -1.259 4.333 4.858 12.574 -8.666 0.6267106536 542 -0.086 -1.259 4.333 4.858 12.574 -8.666 0.6267106421 554 -0.086 -1.259 4.333 4.853 12.574 -8.666 0.6267103783 555 -0.086 -1.259 4.333 4.854 12.574 -8.666 0.6267103738 559 -0.086 -1.259 4.333 4.854 12.574 -8.666 0.6267103458 564 -0.086 -1.259 4.333 4.854 12.574 -8.666 0.6267103384 575 -0.086 -1.259 4.333 4.854 12.512 -8.666 0.6266677508 577 -0.086 -1.259 4.333 4.854 12.532 -8.666 0.6266555064 579 -0.086 -1.259 4.333 4.854 12.531 -8.666 0.6266552089 582 -0.086 -1.259 4.333 4.854 12.530 -8.666 0.6266551910 584 -0.086 -1.259 4.333 4.854 12.530 -8.666 0.6266551875 597 -0.086 -1.259 4.333 4.854 12.530 -8.645 0.6266388944 598 -0.086 -1.259 4.333 4.854 12.530 -8.641 0.6266387033 599 -0.086 -1.259 4.333 4.854 12.530 -8.642 0.6266386906 603 -0.086 -1.259 4.333 4.854 12.530 -8.642 0.6266386733 614 -0.099 -1.259 4.333 4.854 12.530 -8.642 0.6266374770 615 -0.093 -1.259 4.333 4.854 12.530 -8.642 0.6266355190 622 -0.093 -1.259 4.333 4.854 12.530 -8.642 0.6266355188 634 -0.093 -1.256 4.333 4.854 12.530 -8.642 0.6266350547 635 -0.093 -1.256 4.333 4.854 12.530 -8.642 0.6266350444 641 -0.093 -1.256 4.333 4.854 12.530 -8.642 0.6266350371 642 -0.093 -1.256 4.333 4.854 12.530 -8.642 0.6266350366 652 -0.093 -1.256 4.327 4.854 12.530 -8.642 0.6266287090 653 -0.093 -1.256 4.317 4.854 12.530 -8.642 0.6266241976 655 -0.093 -1.256 4.318 4.854 12.530 -8.642 0.6266241964 658 -0.093 -1.256 4.318 4.854 12.530 -8.642 0.6266241588 671 -0.093 -1.256 4.318 4.831 12.530 -8.642 0.6266212273 672 -0.093 -1.256 4.318 4.837 12.530 -8.642 0.6266194940 673 -0.093 -1.256 4.318 4.840 12.530 -8.642 0.6266193719 675 -0.093 -1.256 4.318 4.839 12.530 -8.642 0.6266193562 677 -0.093 -1.256 4.318 4.840 12.530 -8.642 0.6266193371 692 -0.093 -1.256 4.318 4.840 12.537 -8.642 0.6266167069 696 -0.093 -1.256 4.318 4.840 12.537 -8.642 0.6266167009 697 -0.093 -1.256 4.318 4.840 12.537 -8.642 0.6266166920 710 -0.093 -1.256 4.318 4.840 12.537 -8.635 0.6266159343 711 -0.093 -1.256 4.318 4.840 12.537 -8.636 0.6266159005 713 -0.093 -1.256 4.318 4.840 12.537 -8.636 0.6266158637 729 -0.102 -1.256 4.318 4.840 12.537 -8.636 0.6266072819 730 -0.103 -1.256 4.318 4.840 12.537 -8.636 0.6266072690 734 -0.103 -1.256 4.318 4.840 12.537 -8.636 0.6266072688 735 -0.103 -1.256 4.318 4.840 12.537 -8.636 0.6266072684 737 -0.103 -1.256 4.318 4.840 12.537 -8.636 0.6266072683 748 -0.103 -1.258 4.318 4.840 12.537 -8.636 0.6266071779 749 -0.103 -1.257 4.318 4.840 12.537 -8.636 0.6266071563 769 -0.103 -1.258 4.309 4.840 12.537 -8.636 0.6266052921 770 -0.103 -1.258 4.312 4.840 12.537 -8.636 0.6266047482 772 -0.103 -1.258 4.312 4.840 12.537 -8.636 0.6266047321 773 -0.103 -1.258 4.312 4.840 12.537 -8.636 0.6266047291 774 -0.103 -1.258 4.312 4.840 12.537 -8.636 0.6266047285 776 -0.103 -1.258 4.312 4.840 12.537 -8.636 0.6266047262 787 -0.103 -1.258 4.312 4.839 12.537 -8.636 0.6266046753 795 -0.103 -1.258 4.312 4.839 12.537 -8.636 0.6266046711 812 -0.103 -1.258 4.312 4.839 12.541 -8.636 0.6266030703 813 -0.103 -1.258 4.312 4.839 12.544 -8.636 0.6266028223 818 -0.103 -1.258 4.312 4.839 12.543 -8.636 0.6266028021 854 -0.106 -1.259 4.309 4.839 12.546 -8.636 0.6266017733 863 -0.106 -1.259 4.309 4.839 12.546 -8.636 0.6266017705 872 -0.106 -1.259 4.309 4.839 12.546 -8.634 0.6266016615 882 -0.106 -1.259 4.309 4.839 12.546 -8.634 0.6266016420 883 -0.106 -1.259 4.309 4.839 12.546 -8.634 0.6266016415 1043 -0.106 -1.259 4.309 4.839 12.546 -8.634 0.6266016313 1046 -0.106 -1.259 4.309 4.839 12.546 -8.634 0.6266016275 Powell done niters = 9 Computing relative cost 0 -25.0 -25.0 -25.0 0.993799 1 -25.0 -25.0 25.0 1.021339 2 -25.0 25.0 -25.0 1.009768 3 -25.0 25.0 25.0 1.005780 4 25.0 -25.0 -25.0 1.000058 5 25.0 -25.0 25.0 0.985543 6 25.0 25.0 -25.0 0.985026 7 25.0 25.0 25.0 1.006644 REL: 8 0.626602 8.007957 1.000995 rel = 0.625979 Number of iterations 9 Min cost was 0.626602 Number of FunctionCalls 1192 TolPowell 0.000000 nMaxItersPowell 36 OptimizationTime 260.041000 sec Parameters at optimum (transmm, rotdeg) -0.10625 -1.25988 4.30906 4.83958 12.54581 -8.63439 Costs at optimum 219803 789.1658 209.1794 24.1198 877.1742 241.6018 10.0271 0.6266 Reg at min cost was -0.983 -0.137 0.123 -6.759; 0.173 -0.467 0.867 -39.679; 0.061 -0.874 -0.482 -4.131; 0.000 0.000 0.000 1.000; Writing optimal reg to /home/tylers/bbreg_test/init-spm/spm_register.dat Original Reg -0.987 0.126 0.096 1.043; 0.010 -0.553 0.833 -39.553; -0.158 -0.823 -0.545 -5.096; 0.000 0.000 0.000 1.000; Original Reg - Optimal Reg -0.004 0.263 -0.027 7.802; -0.163 -0.087 -0.034 0.126; -0.220 0.050 -0.063 -0.965; 0.000 0.000 0.000 0.000; Computing change in lh position LH rmsDiffMean 12.388663 Computing change in rh position Surface RMS Diff (mm) 12.801314 20.855129 mri_segreg done Cleaning up Started at Thu Mar 17 14:41:09 PDT 2011 Ended at Thu Mar 17 14:47:20 PDT 2011 BBR-Run-Time-Sec 371 bbregister Done To check results, run: tkregister2 --mov /home/tylers/bbreg_test/T2brain.nii.gz --reg /home/tylers/bbreg_test/init-spm/spm_register.dat --surf